Lineage-Specific Growth Curves Document Large Differences in Response of Individual Groups of Marine Bacteria to the Top-Down and Bottom-Up Controls

Fecskeová, Lívia Kolesár; Piwosz, Kasia; Šantić, Danijela; Šestanović, Stefanija; Tomaš, Ana Vrdoljak; Hanusová, Martina; Šolić, Mladen; Koblížek, Michal

doi:10.1128/msystems.00934-21

Cited by 19 publications

(22 citation statements)

References 69 publications

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“…Differences in phosphate and phosphonate transporter protein abundance have been observed between the oligotrophic Sargasso Sea and nutrient-rich upwelling areas (65, 66), but not on these finer temporal and spatial scales. A more recent study using incubations of microbial communities demonstrated that SAR11 increased growth rates with the addition of phosphate but not the elimination of grazers (29). Phosphate starvation or possibly increases in phosphonate also may lead to large changes in SAR11 metabolism.…”

Section: Discussionmentioning

confidence: 99%

“…Previous estimates by our group using 16S rRNA gene:rRNA ratios in the coastal Mid-Atlantic suggest that about half of the SAR11 taxa had lower growth rates than average, whereas the other half had average or above average growth rates, which varied by season (26). Differential use of glucose and phosphate was also observed within the SAR11 clade, likely contributing to differences in ocean productivity (27, 28) and perhaps also to growth rate (29). In addition, data from a technique combining microautoradiography and fluorescence in situ hybridization (MAR-FISH) suggest that SAR11 bacteria are in fact growing as fast, if not faster than other bacteria in surface waters of the North Atlantic (30, 31).…”

Section: Introductionmentioning

confidence: 99%

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Controls of SAR11 subclade abundance, diversity, and growth in two Mid-Atlantic estuaries

Campbell

Lim

Kirchman

2022

Preprint

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SAR11 is a dominant bacterial clade in marine oligotrophic ecosystems. SAR11 can also be dominant in estuarine systems, where they are not well-studied. We examined the effects of season, nutrient concentrations, and salinity in shaping SAR11 subclade abundance, diversity, function, and growth in two Mid-Atlantic estuaries, the Delaware and Chesapeake Bays. Using metagenome-assembled genomes, we identified twelve distinct genomospecies within the Ia, II, IIIa, and V subclades, which made up to 60% of the total bacterial community. The functional potential of all SAR11 genomospecies varied, especially in carbohydrate metabolism, transporters, and one-carbon metabolic pathways. Predicted growth rates, estimated by the Peak to Trough method, varied by season and genomospecies. SAR11 growth rates negatively correlated in the spring but positively correlated in the summer with chlorophyll a concentrations and bacterial production, as well as phosphate and ammonium concentrations. Genomospecies in Ia.1, IIIa.2, and IIIa.4 subclades had low growth rates, while genomospecies in Ia.3, Ia.5, Ia.6, II, and V subclades had higher and more variable growth rates that were positively correlated with phosphate concentrations and temperature. Growth rate variation between subclades was associated with carbohydrate metabolic gene repertoires, especially glycolysis and number of transporters. While total transcript to genome ratios generally mirrored growth rates, transcription of genes involved in phosphate and nitrogen transport were negatively associated with growth rates. These data suggest that SAR11 genomospecies abundance varies in these estuaries because of differences in growth rates and metabolic capacities and changes with environmental conditions.

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Section: Discussionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

Controls of SAR11 subclade abundance, diversity, and growth in two Mid-Atlantic estuaries

Campbell

Lim

Kirchman

2022

Preprint

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“…Recently, molecular methods were used for the first time to determine bacterial diversity in open areas of the central and southern Adriatic Sea, and the use of Neural Gas showed a heterogeneous response to different environmental factors (Šantić et al, 2021). Moreover, in Kaštela Bay, qualitative annotation by amplicon reads with normalization by the standard internal method was applied for the first time to determine the growth curves of different phylotypes of bacteria and AAPs using the 16S rRNA and pufM genes (Fecskeová et al, 2021) and compared them with counts by microscopy and catalyzed reporter deposition -fluorescence in situ hybridization (CARD-FISH).…”

Section: Influence Of Environmental Factors On Aerobic Anoxygenic Pho...mentioning

confidence: 99%

Aerobic anoxygenic phototrophs of the Adriatic Sea

Tomaš

Šantić

Stojan

et al. 2023

Acta Adriat. (Online)

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Aerobic anoxygenic phototrophs are a newly discovered member of the bacterial community in the Adriatic Sea. During the last seven years, when we started to study these organisms, we have collected a considerable number of samples from different environments, from the coast, the estuary, and the open sea. Here we have compiled data from 34 georeferenced study sites from four studies that summarize all that is known about aerobic anoxygenic phototrophs and examine the spatial and vertical distribution and environmental factors affecting this community in the Adriatic Sea. We found horizontal and vertical influences on AAP distribution, mainly salinity, nitrates, chlorophyll a, ammonium, temperature, and soluble reactive phosphorus. Much is known about their ecology in the Adriatic, and with a new survey underway, we will expand our knowledge of their community composition and their role in carbon flux to higher trophic levels.

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“…Studies have been carried out on the proportion of individual picoplankton groups under specific environmental conditions 11 – 13 , but data on the year-round qualitative and quantitative response of picoplankton in general is limited. Therefore, this study provides the first comprehensive insight into the seasonal and spatial dynamics of the picoplankton community in the Adriatic Sea in terms of abundance, the dynamics of major bacterial groups, and archaeal and bacterial diversity.…”

Section: Introductionmentioning

confidence: 99%

Picoplankton diversity in an oligotrophic and high salinity environment in the central Adriatic Sea

Šantić

Stojan

Matić

et al. 2023

Sci Rep

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By combining qualitative 16S metabarcoding and quantitative CARD-FISH methods with neural gas analysis, different patterns of the picoplankton community were revealed at finer taxonomic levels in response to changing environmental conditions in the Adriatic Sea. We present the results of a one-year study carried out in an oligotrophic environment where increased salinity was recently observed. We have shown that the initial state of community structure changes according to environmental conditions and is expressed as qualitative and quantitative changes. A general pattern of increasing diversity under harsh environmental conditions, particularly under the influence of increasing salinity at the expense of community abundance was observed. Considering the trend of changing seawater characteristics due to climate change, this study helps in understanding a possible structural change in the microbial community of the Adriatic Sea that could affect higher levels of the marine food web.

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Lineage-Specific Growth Curves Document Large Differences in Response of Individual Groups of Marine Bacteria to the Top-Down and Bottom-Up Controls

Abstract: Growth is one of the main manifestations of life. It is assumed generally that bacterial growth is constrained mostly by nutrient availability (bottom-up control) and grazing (top-down control).

Cited by 19 publications

References 69 publications

Controls of SAR11 subclade abundance, diversity, and growth in two Mid-Atlantic estuaries

Controls of SAR11 subclade abundance, diversity, and growth in two Mid-Atlantic estuaries

Aerobic anoxygenic phototrophs of the Adriatic Sea

Picoplankton diversity in an oligotrophic and high salinity environment in the central Adriatic Sea

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