Home > Events > 1 Metabarcoding spring school in French Alps (5-9 March 2012) > Presentations > From Swaziland to the UK - next generation sequencing on bat (...)

Monday 5 March 2012

From Swaziland to the UK - next generation sequencing on bat faeces

BOHMANN Kristine

Insectivorous bats consume large numbers of insects but because they hunt at night, observing what they eat are difficult. Furthermore, because they masticate their prey thoroughly, and often do not swallow the hard parts, identifying insect fragments in their faeces by conventional microscope-based faecal analyses are problematic. This makes molecular diet analyses appealing. Molecular diet analyses of faeces are conventionally limited to PCR amplification of target prey fragments or via whole faecal extraction coupled with molecular cloning but next generation sequencing combined with bioinformatic analyses offer a more cost effective alternative on a large scale as it rapidly generates large amounts of sequence data without the need for cloning.

Analyses on faecal pellets from two free-tailed bat species from Swaziland, little free-tailed bat (Chaerephon pumilus) and Angolan free-tailed bat (Mops condylurus), were carried out using the Roche FLX sequencing platform to deep-sequence mini barcode cytochrome coxidase I (COI) fragments (157 bp). In order to further increase the power and economy of the method, uniquely tagged primers were used to amplify DNA from each pellet, thereby enabling the parallel sequencing of prey sequences from all faecal samples whilst tracking the origin of prey sequences. Although the analyses were challenged by the paucity of southern African insect COI sequences in the GenBank and BOLD databases, similarity to existing collections allowed the preliminary identification of 25 families from six orders of insects within the diet of C. pumilus, and 24 families from seven orders within the diet of M. condylurus.

Future studies will be on greater horseshoe bat (Rhinolophus ferrumequinum) and lesser horseshoe bat (Rhinolophus hipposideros) in the UK where I will investigate the bats’ diet and whether next generation sequencing can be used to assess nocturnal insect diversity.

Twitter : @Metabarcoding
Editorial board
  • BRANDNER Melissa
    • University of Nordland
    • Bodø (Norway)
  • BROCHMANN Christian
    • National Centre for Biosystematics
    • Oslo (Norway)
  • CHARITON Anthony
    • CSIRO Land and Water
    • Lucas Heights NA (Australia)
  • DEAGLE Bruce
    • University of Victoria
    • Victoria (Canada)
  • Eric Coissac
    • LECA
    • Grenoble (France)
  • KASAPIDIS Panagiotis
    • Hellenic Center for Marine Research
    • Irakleion, Crete (Greece)
  • PAWLOWSKI Jan
    • Université de Genève
    • Genève 4 (Switzerland)
  • TABERLET Pierre
    • LECA,
    • Grenoble (France)
  • WILLERSLEV Eske
    • Centre for GeoGenetics
    • Copenhagen (Denmark)
Editorial
  • Vodka, Bison and Metabarcoding

    31 July 2015, by BRANDNER Melissa

    The start of last month saw the occurrence of the Fifth Metabarcoding Spring School held in Białowieża National Park , Poland. A variety of scientists attended from all over the globe to learn, share and inspire with unique stories of metabarcoding.
    The scientists at the Mammal Research Institute PAS in Białowieża National Park hosted this year’s workshop. And our hats go off to them for the organizational skills, warmth and hospitality. During the week, experienced metabarcoders gave lectures on their trials and tribulations in the field of metabarcoding, sparking conversations between the attendees. The end of the first day saw flash talks from all participants of the event, creating an icebreaker and showing the wide variety of applications for metabarcoding, including, dietary studies, environmental health, fundamental ecology and exploration of rare and ancient habitats.
    Pierre Taberlet (who is rumoured to run 8000 PCR a day!) taught technical aspects such as DNA extraction in (...)

  • metabarcoding.org
    metabarcoding.org is hosted by PRABI | | Site Map | Follow site activity RSS 2.0 SPIP
    Graphic design (c) Yves Costiou under License GPL