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Newly designed foraminifera primers identify habitat-specific lineages through metabarcoding analyses.
Thakur, Rabindra; Collens, Adena B; Greco, Mattia; Sleith, Robin S; Grattepanche, Jean-David; Katz, Laura A.
Afiliación
  • Thakur R; Program in Organismic and Evolutionary Biology, University of Massachusetts, Amherst, Massachusetts, USA.
  • Collens AB; Department of Biological Science, Smith College, Northampton, Massachusetts, USA.
  • Greco M; Department of Biological Science, Smith College, Northampton, Massachusetts, USA.
  • Sleith RS; Department of Biological Science, Smith College, Northampton, Massachusetts, USA.
  • Grattepanche JD; Department of Biological Science, Smith College, Northampton, Massachusetts, USA.
  • Katz LA; Department of Biological Science, Smith College, Northampton, Massachusetts, USA.
J Eukaryot Microbiol ; 69(3): e12913, 2022 05.
Article en En | MEDLINE | ID: mdl-35332619
Foraminifera include diverse shell-building lineages found in a wide array of aquatic habitats from the deep-sea to intertidal zones to brackish and freshwater ecosystems. Recent estimates of morphological and molecular foraminifera diversity have increased the knowledge of foraminiferal diversity, which is critical as these lineages are used as bioindicators of past and present environmental perturbation. However, a comparative analysis of foraminiferal biodiversity between their major habitats (freshwater, brackish, intertidal, and marine) is underexplored, particularly using molecular tools. Here, we present a metabarcoding survey of foraminiferal diversity across different ecosystems using newly designed foraminifera-specific primers that target the hypervariable regions of the foraminifera SSU-rRNA gene (~250-300 bp long). We tested these primer sets on four foraminifera species and then across several environments: the intertidal zone, coastal ecosystems, and freshwater vernal pools. We retrieved 655 operational taxonomic units (OTUs); the majority of which are undetermined taxa that have no closely matching sequences in the reference database. Furthermore, we identified 163 OTUs with distinct habitat preferences. Most of the observed OTUs belonged to lineages of single-chambered foraminifera, including poorly explored freshwater foraminifera which encompass a clade of Reticulomyxa-like forms. Our pilot study provides the community with an additional set of newly designed and taxon-specific primers to elucidate foraminiferal diversity across different habitats.
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Texto completo: 1 Colección: 01-internacional Base de datos: MEDLINE Asunto principal: Foraminíferos Idioma: En Revista: J Eukaryot Microbiol Asunto de la revista: MICROBIOLOGIA / PARASITOLOGIA Año: 2022 Tipo del documento: Article País de afiliación: Estados Unidos Pais de publicación: Estados Unidos
Texto completo
Añadir a Mi BVS
Imprimir
XML
PubMed Links
Buscar en Google

Texto completo: 1 Colección: 01-internacional Base de datos: MEDLINE Asunto principal: Foraminíferos Idioma: En Revista: J Eukaryot Microbiol Asunto de la revista: MICROBIOLOGIA / PARASITOLOGIA Año: 2022 Tipo del documento: Article País de afiliación: Estados Unidos Pais de publicación: Estados Unidos