Discovery Pipeline

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IndoBioSys field team 2016
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IndoBioSys field team 2015

Establishing a Biodiversity Discovery Pipeline in Indonesia

The aim of the field research in Indonesia is to develop a standardized biodiversity discovery pipeline to speed up the process from sampling, identification, and storing promising target taxa from underexplored high biodiversity areas. The pipeline comprises three major components and methods in the field: sampling of specimens, sorting (and primary sample identification), and databasing (data collection in a database).

Another important part of the pipeline is molecular biodiversity assessment: DNA barcoding is a molecular tool for the fast and reliable identification of biological specimens and for the discovery of unknown species. Specimens for the DNA barcoding part of the pipeline are processed at the Zoologische Staatssammlung München (ZSM) and are afterwards returned and permanently deposited at the Indonesian partner institute Museum Zoologicum Bogoriense (Research Center for Biology – LIPI in Cibinong, Indonesia). For more details please see the ZSM Collection Blog.

Field research is managed and conducted by international teams of project scientists and taxonomic experts from European and Indonesian research institutions. Two teams already collected in Mount Halimun Salak National Park, a 400 km² conservation area in West Java, in 2015 and 2016.

Sampling

Electrofishing

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Sampling methods: Electrofishing. Electrofishing is a common method to sample fish in freshwater. Copyright: J. Frisch_MfN-Berlin
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Sampling methods: Electrofishing. Electrofishing is a common method to sample fish in freshwater. Copyright: J. Frisch_MfN-Berlin
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Sampling methods: Electrofishing equipment. Copyright: J. Frisch_MfN-Berlin

Fogging

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Sampling methods: Canopy fogging. Fogging is an efficient method to collect canopy arthropods such as insects and spiders. The spray does not harm other animals in the trees such as birds or mammals. Copyright: B. Schurian, MfN-Berlin
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Sampling methods: Canopy fogging. Fogging is an efficient method to collect canopy arthropods such as insects and spiders. The spray does not harm other animals in the trees such as birds or mammals. Copyright: B. Schurian, MfN-Berlin
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Sampling methods: Canopy fogging. Fogging is an efficient method to collect canopy arthropods such as insects and spiders. The spray does not harm other animals in the trees such as birds or mammals. Copyright: B. Schurian, MfN-Berlin
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Sampling methods: Canopy fogging. Fogging is an efficient method to collect canopy arthropods such as insects and spiders. The spray does not harm other animals in the trees such as birds or mammals. Copyright: B. Schurian, MfN-Berlin
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Sampling methods: Canopy fogging. Plastic sheets are placed underneath the trees being fogged to collect falling arthropods. Copyright: B. Schurian, MfN-Berlin
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Sampling methods: Canopy fogging. Fallen arthropods are gently brushed from the plastic sheets into small containers filled with ethanol. Copyright: B. Schurian, MfN-Berlin
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Sampling methods: Canopy fogging. Fallen arthropods are gently brushed from the plastic sheets into small containers filled with ethanol. Copyright: B. Schurian, MfN-Berlin
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Sampling methods: Canopy fogging. Fallen arthropods are gently brushed from the plastic sheets into small containers filled with ethanol. Copyright: B. Schurian, MfN-Berlin
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Sampling methods: Canopy fogging. Collected specimens are preserved in ethanol. Copyright: B. Schurian, MfN-Berlin

Hand Collecting

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Sampling methods: Hand collecting. Collecting Myriapoda in the national park. Copyright: B. Schurian, MfN-Berlin
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Sampling methods: Hand collecting. Collecting Myriapoda in the national park. Copyright: B. Schurian, MfN-Berlin
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Sampling methods: Hand collecting. Collecting Myriapoda in the national park. Copyright: B. Schurian, MfN-Berlin
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Sampling methods: Hand collecting. Collecting Myriapoda in the national park. Copyright: B. Schurian, MfN-Berlin

Hand Nets

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Sampling methods: Hand nets. Collecting butterflies and moths in the national park with insect nets. Copyright: B. Schurian, MfN-Berlin
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Sampling methods: Hand nets. Specimens are carefully packed for transport to the next field station. Copyright: B. Schurian, MfN-Berlin
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Sampling methods: Hand nets. Collecting butterflies and moths in the national park with insect nets. Copyright: B. Schurian, MfN-Berlin
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Sampling methods: Hand nets. Collecting butterflies and moths in the national park with insect nets. Copyright: B. Schurian, MfN-Berlin
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Sampling methods: Hand nets. Collecting butterflies and moths in the national park with insect nets. Copyright: B. Schurian, MfN-Berlin
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Sampling methods: Hand nets. Collecting butterflies and moths in the national park with insect nets. Copyright: B. Schurian, MfN-Berlin

Light Trapping

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Sampling methods: Light trapping. Light traps attract a lot of flying insects. Copyright: B. Schurian, MfN-Berlin
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Sampling methods: Light trapping. A moth attracted by a light trap. Copyright: B. Schurian, MfN-Berlin
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Sampling methods: Light trapping. Setting up a light trap in the national park. Copyright: B. Schurian, MfN-Berlin
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Sampling methods: Light trapping tower: Waiting for insects. Copyright: B. Schurian, MfN-Berlin
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Sampling methods: Light trapping. Specimens are collected in jars. Copyright: B. Schurian, MfN-Berlin
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Sampling methods: Light trapping. Specimens are collected in jars. Copyright: B. Schurian, MfN-Berlin
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Sampling methods: Light trapping. Using UV light with a white sheet. Copyright: B. Schurian, MfN-Berlin
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Sampling methods: Light trapping. Using UV light with a white sheet. Copyright: B. Schurian, MfN-Berlin
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Sampling methods: Light trapping tower. Copyright: B. Schurian, MfN-Berlin

Other Methods

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Sampling methods: Malaise traps are used for collecting flying insects. Copyright: T. von Rintelen, MfN Berlin
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Sampling methods: Mist nets for bats. Collecting bats in the national park. Copyright: B. Schurian, MfN-Berlin

Sorting

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Sorting and primary sampling processing. Sorting bulk samples into target taxa is an important part of the sorting pipeline. Copyright: B. Schurian, MfN-Berlin
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Sorting and primary sampling processing. Bulk samples from different sampling methods will be initially separated into taxonomic groups and later into morphospecies. Copyright: B. Schurian, MfN-Berlin
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Sorting and primary sampling processing. Bulk samples from different sampling methods will be initially separated into taxonomic groups and later into morphospecies. Copyright: B. Schurian, MfN-Berlin
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Sorting and primary sampling processing. Presorting orthopterans, a group of insects. Copyright: B. Schurian, MfN-Berlin
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Sorting and primary sampling processing. Sorting and mounting of dipterans (flies). Copyright: B. Schurian, MfN-Berlin
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Sorting and primary sampling processing. Sorting and mounting of dipterans (flies). Copyright: B. Schurian, MfN-Berlin
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Sorting and primary sampling processing. Example of sorting equipment for a taxonomic expert. Copyright: B. Schurian, MfN-Berlin
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Sorting and primary sampling processing. Basic identification of spcies of bats in the field by a taxonomic expert. Copyright: B. Schurian, MfN-Berlin
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Sorting and primary sampling processing. Sorting and preparation of lepidopterans (bufferflies and moths) by a taxonomic expert. Copyright: B. Schurian, MfN-Berlin
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Sorting and primary sampling processing. Sorting and preparation of lepidopterans (bufferflies and moths) by a taxonomic expert. Copyright: B. Schurian, MfN-Berlin
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Sorting and primary sampling processing. Stereomicroscopes are used for sorting and basic identification in the field stations. Copyright: B. Schurian, MfN-Berlin
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Sorting and primary sampling processing. Sorting tray with several species of spiders. Copyright: B. Schurian, MfN-Berlin
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Sorting and primary sampling processing. Sieving and sorting leaf litter and soil samples for collecting microsnails (smaller than 1 cm). Copyright: A. S. Nurinsiyah

Databasing

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Databasing: Recording field data. Field data collected with smartphones can be downloaded onto computers for further data processing. Copyright: B. Schurian, MfN-Berlin
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Databasing: Digital imaging. Imaging of target taxa as part of the databasing pipeline for IndoBioSys. Copyright: B. Schurian, MfN-Berlin
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Databasing: Digital imaging. Imaging of target taxa as part of the databasing pipeline for IndoBioSys. Copyright: B. Schurian, MfN-Berlin
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Databasing: QR-Code labels. QR-Codes are used for efficient sample labelling in the field and enable an error-proof tracking of samples for IndoBioSys. Copyright: B. Schurian, MfN-Berlin
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Databasing: QR-Code labels. QR-Codes are used for efficient sample labelling in the field and enable an error-proof tracking of samples for IndoBioSys. Copyright: B. Schurian, MfN-Berlin
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Databasing: Smartphone application. Scanning of QR-Code labes as part of the databasing pipeline in IndoBioSys. Copyright: B. Schurian, MfN-Berlin