Sampling Device-Dependence of Prokaryotic Community Structure on Marine Particles: Higher Diversity Recovered by in situ Pumps Than by Oceanographic Bottles
Microbes associated with sinking marine particles play key roles in carbon sequestration in the ocean. The sampling of particle-attached microorganisms is often done with sediment traps or by filtration of water collected with oceanographic bottles, both involving a certain time lapse between collec...
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ftdoajarticles:oai:doaj.org/article:1dd4710ae57343899539842847d72f0a 2023-05-15T13:35:01+02:00 Sampling Device-Dependence of Prokaryotic Community Structure on Marine Particles: Higher Diversity Recovered by in situ Pumps Than by Oceanographic Bottles Viena Puigcorbé Clara Ruiz-González Pere Masqué Josep M. Gasol 2020-07-01T00:00:00Z https://doi.org/10.3389/fmicb.2020.01645 https://doaj.org/article/1dd4710ae57343899539842847d72f0a EN eng Frontiers Media S.A. https://www.frontiersin.org/article/10.3389/fmicb.2020.01645/full https://doaj.org/toc/1664-302X 1664-302X doi:10.3389/fmicb.2020.01645 https://doaj.org/article/1dd4710ae57343899539842847d72f0a Frontiers in Microbiology, Vol 11 (2020) prokaryotic communities marine particles size-fractionation in situ pumps oceanographic bottles polynyas Microbiology QR1-502 article 2020 ftdoajarticles https://doi.org/10.3389/fmicb.2020.01645 2022-12-31T12:02:26Z Microbes associated with sinking marine particles play key roles in carbon sequestration in the ocean. The sampling of particle-attached microorganisms is often done with sediment traps or by filtration of water collected with oceanographic bottles, both involving a certain time lapse between collection and processing of samples that may result in changes in particle-attached microbial communities. Conversely, in situ water filtration through submersible pumps allows a faster storage of sampled particles, but it has rarely been used to study the associated microbial communities and has never been compared to other particle-sampling methods in terms of the recovery of particle microbial diversity. Here we compared the prokaryotic communities attached to small (1–53 μm) and large (>53 μm) particles collected from the mesopelagic zone (100–300 m) of two Antarctic polynyas using in situ pumps (ISP) and oceanographic bottles (BTL). Each sampling method retrieved largely different particle-attached communities, suggesting that they capture different kinds of particles. These device-driven differences were greater for large particles than for small particles. Overall, the ISP recovered 1.5- to 3-fold more particle-attached bacterial taxa than the BTL, and different taxonomic groups were preferentially recovered by each method. In particular, typical particle-attached groups such as Planctomycetes and Deltaproteobacteria recovered with ISP were nearly absent from BTL samples. Our results suggest that the method used to sample marine particles has a strong influence in our view of their associated microbial communities. Article in Journal/Newspaper Antarc* Antarctic Directory of Open Access Journals: DOAJ Articles Antarctic Frontiers in Microbiology 11 |
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Open Polar |
collection |
Directory of Open Access Journals: DOAJ Articles |
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ftdoajarticles |
language |
English |
topic |
prokaryotic communities marine particles size-fractionation in situ pumps oceanographic bottles polynyas Microbiology QR1-502 |
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prokaryotic communities marine particles size-fractionation in situ pumps oceanographic bottles polynyas Microbiology QR1-502 Viena Puigcorbé Clara Ruiz-González Pere Masqué Josep M. Gasol Sampling Device-Dependence of Prokaryotic Community Structure on Marine Particles: Higher Diversity Recovered by in situ Pumps Than by Oceanographic Bottles |
topic_facet |
prokaryotic communities marine particles size-fractionation in situ pumps oceanographic bottles polynyas Microbiology QR1-502 |
description |
Microbes associated with sinking marine particles play key roles in carbon sequestration in the ocean. The sampling of particle-attached microorganisms is often done with sediment traps or by filtration of water collected with oceanographic bottles, both involving a certain time lapse between collection and processing of samples that may result in changes in particle-attached microbial communities. Conversely, in situ water filtration through submersible pumps allows a faster storage of sampled particles, but it has rarely been used to study the associated microbial communities and has never been compared to other particle-sampling methods in terms of the recovery of particle microbial diversity. Here we compared the prokaryotic communities attached to small (1–53 μm) and large (>53 μm) particles collected from the mesopelagic zone (100–300 m) of two Antarctic polynyas using in situ pumps (ISP) and oceanographic bottles (BTL). Each sampling method retrieved largely different particle-attached communities, suggesting that they capture different kinds of particles. These device-driven differences were greater for large particles than for small particles. Overall, the ISP recovered 1.5- to 3-fold more particle-attached bacterial taxa than the BTL, and different taxonomic groups were preferentially recovered by each method. In particular, typical particle-attached groups such as Planctomycetes and Deltaproteobacteria recovered with ISP were nearly absent from BTL samples. Our results suggest that the method used to sample marine particles has a strong influence in our view of their associated microbial communities. |
format |
Article in Journal/Newspaper |
author |
Viena Puigcorbé Clara Ruiz-González Pere Masqué Josep M. Gasol |
author_facet |
Viena Puigcorbé Clara Ruiz-González Pere Masqué Josep M. Gasol |
author_sort |
Viena Puigcorbé |
title |
Sampling Device-Dependence of Prokaryotic Community Structure on Marine Particles: Higher Diversity Recovered by in situ Pumps Than by Oceanographic Bottles |
title_short |
Sampling Device-Dependence of Prokaryotic Community Structure on Marine Particles: Higher Diversity Recovered by in situ Pumps Than by Oceanographic Bottles |
title_full |
Sampling Device-Dependence of Prokaryotic Community Structure on Marine Particles: Higher Diversity Recovered by in situ Pumps Than by Oceanographic Bottles |
title_fullStr |
Sampling Device-Dependence of Prokaryotic Community Structure on Marine Particles: Higher Diversity Recovered by in situ Pumps Than by Oceanographic Bottles |
title_full_unstemmed |
Sampling Device-Dependence of Prokaryotic Community Structure on Marine Particles: Higher Diversity Recovered by in situ Pumps Than by Oceanographic Bottles |
title_sort |
sampling device-dependence of prokaryotic community structure on marine particles: higher diversity recovered by in situ pumps than by oceanographic bottles |
publisher |
Frontiers Media S.A. |
publishDate |
2020 |
url |
https://doi.org/10.3389/fmicb.2020.01645 https://doaj.org/article/1dd4710ae57343899539842847d72f0a |
geographic |
Antarctic |
geographic_facet |
Antarctic |
genre |
Antarc* Antarctic |
genre_facet |
Antarc* Antarctic |
op_source |
Frontiers in Microbiology, Vol 11 (2020) |
op_relation |
https://www.frontiersin.org/article/10.3389/fmicb.2020.01645/full https://doaj.org/toc/1664-302X 1664-302X doi:10.3389/fmicb.2020.01645 https://doaj.org/article/1dd4710ae57343899539842847d72f0a |
op_doi |
https://doi.org/10.3389/fmicb.2020.01645 |
container_title |
Frontiers in Microbiology |
container_volume |
11 |
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1766060211151306752 |