Literature DB >> 30557098

Minimalist barcodes for sponges: a case study classifying African freshwater Spongillida.

Dirk Erpenbeck1,2, Markus Steiner1, Astrid Schuster1, Martin J Genner3, Renata Manconi4, Roberto Pronzato5, Bernhard Ruthensteiner2,6, Didier van den Spiegel7, Rob W M van Soest8, Gert Wörheide1,2,9.   

Abstract

African sponges, particularly freshwater sponges, are understudied relative to demosponges in most other geographical regions. Freshwater sponges (Spongillida) likely share a common ancestor; however, their evolutionary history, particularly during their radiation into endemic and allegedly cosmopolitan groups, is unclear. Freshwater sponges of at least 58 species of 17 genera and four families are described from Central and Eastern Africa, but the diversity is underestimated due to limited distinguishable morphological features. The discovery of additional cryptic species is very likely with the use of molecular techniques such as DNA barcoding. The Royal Museum of Central Africa (MRAC, Tervuren, Belgium) hosts one of the largest collections of (Central) African freshwater sponge type material. Type specimens in theory constitute ideal targets for molecular taxonomy; however, the success is frequently hampered by DNA degradation and deamination, which are a consequence of suboptimal preservation techniques. Therefore, we genotyped African demosponge holotype material of the MRAC with specific short primers suitable for degenerated tissue and compare the results with the current, morphology-based classification. Our results demonstrate the utility of minimalistic barcodes for identification of sponges, potentially enabling efficient identification of individuals in taxonomic or metabarcoding studies, and highlight inconsistencies in the current freshwater sponge classification.

Keywords:  DNA barcoding; Porifera; Spongilida; Spongillida; classification; codage à barres de l’ADN; code à barres minimaliste; freshwater sponges; minimalist barcode; éponges d’eau douce

Mesh:

Year:  2018        PMID: 30557098     DOI: 10.1139/gen-2018-0098

Source DB:  PubMed          Journal:  Genome        ISSN: 0831-2796            Impact factor:   2.166


  3 in total

1.  Read-SpaM: assembly-free and alignment-free comparison of bacterial genomes with low sequencing coverage.

Authors:  Anna-Katharina Lau; Svenja Dörrer; Chris-André Leimeister; Christoph Bleidorn; Burkhard Morgenstern
Journal:  BMC Bioinformatics       Date:  2019-12-17       Impact factor: 3.169

2.  Community composition and functional prediction of prokaryotes associated with sympatric sponge species of southwestern Atlantic coast.

Authors:  C C P Hardoim; A C M Ramaglia; G Lôbo-Hajdu; M R Custódio
Journal:  Sci Rep       Date:  2021-05-05       Impact factor: 4.379

3.  Genetic analysis confirms the freshwater origin of the endemic Caspian sponges (Demospongiae, Spongillida, Metschnikowiidae).

Authors:  Agniya M Sokolova; Dmitry M Palatov; Valeria B Itskovich
Journal:  Zookeys       Date:  2020-02-24       Impact factor: 1.546

  3 in total

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