CARD-FISH in the Sequencing Era: Opening a New Universe of Protistan Ecology
The result's identifiers
Result code in IS VaVaI
<a href="https://www.isvavai.cz/riv?ss=detail&h=RIV%2F60077344%3A_____%2F21%3A00542712" target="_blank" >RIV/60077344:_____/21:00542712 - isvavai.cz</a>
Alternative codes found
RIV/61388971:_____/21:00542712
Result on the web
<a href="https://www.frontiersin.org/articles/10.3389/fmicb.2021.640066/full" target="_blank" >https://www.frontiersin.org/articles/10.3389/fmicb.2021.640066/full</a>
DOI - Digital Object Identifier
<a href="http://dx.doi.org/10.3389/fmicb.2021.640066" target="_blank" >10.3389/fmicb.2021.640066</a>
Alternative languages
Result language
angličtina
Original language name
CARD-FISH in the Sequencing Era: Opening a New Universe of Protistan Ecology
Original language description
Phagotrophic protists are key players in aquatic food webs. Although sequencing-based studies have revealed their enormous diversity, ecological information on in situ abundance, feeding modes, grazing preferences, and growth rates of specific lineages can be reliably obtained only using microscopy-based molecular methods, such as Catalyzed Reporter Deposition-Fluorescence in situ Hybridization (CARD-FISH). CARD-FISH is commonly applied to study prokaryotes, but less so to microbial eukaryotes. Application of this technique revealed that Paraphysomonas or Spumella-like chrysophytes, considered to be among the most prominent members of protistan communities in pelagic environments, are omnipresent but actually less abundant than expected, in contrast to little known groups such as heterotrophic cryptophyte lineages (e.g., CRY1), cercozoans, katablepharids, or the MAST lineages. Combination of CARD-FISH with tracer techniques and application of double CARD-FISH allow visualization of food vacuole contents of specific flagellate groups, thus considerably challenging our current, simplistic view that they are predominantly bacterivores. Experimental manipulations with natural communities revealed that larger flagellates are actually omnivores ingesting both prokaryotes and other protists. These new findings justify our proposition of an updated model of microbial food webs in pelagic environments, reflecting more authentically the complex trophic interactions and specific roles of flagellated protists, with inclusion of at least two additional trophic levels in the nanoplankton size fraction. Moreover, we provide a detailed CARD-FISH protocol for protists, exemplified on mixo- and heterotrophic nanoplanktonic flagellates, together with tips on probe design, a troubleshooting guide addressing most frequent obstacles, and an exhaustive list of published probes targeting protists.
Czech name
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Czech description
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Classification
Type
J<sub>imp</sub> - Article in a specialist periodical, which is included in the Web of Science database
CEP classification
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OECD FORD branch
10606 - Microbiology
Result continuities
Project
Result was created during the realization of more than one project. More information in the Projects tab.
Continuities
P - Projekt vyzkumu a vyvoje financovany z verejnych zdroju (s odkazem do CEP)
Others
Publication year
2021
Confidentiality
S - Úplné a pravdivé údaje o projektu nepodléhají ochraně podle zvláštních právních předpisů
Data specific for result type
Name of the periodical
Frontiers in Microbiology
ISSN
1664-302X
e-ISSN
1664-302X
Volume of the periodical
12
Issue of the periodical within the volume
MAR 4 2021
Country of publishing house
CH - SWITZERLAND
Number of pages
24
Pages from-to
640066
UT code for WoS article
000629999400001
EID of the result in the Scopus database
2-s2.0-85102799654