Cooperative Agreement for CESU-affiliated Partner with Chesapeake Watershed Cooperative Ecosystem Studies Unit

The USGS is offering a funding opportunity to a CESU partner for research in a variety of targeted amplicon sequencing molecular studies.

These studies include topics such as diet, honeybee pollen and coral reefs.

Although the samples are different, the goal is the same using our ability

to extract DNA from a variety of samples and perform next generation sequencing.

For instance, amplicon sequencing methods use a set of genetic barcodes to amplify all contributing components in a DNA sample at one time, and next generation sequencing platforms can analyze thousands to hundreds of thousands of individuals per run.

These technologies allow detectability and quantification of diet components at levels not achieved with microscopy.

While such sequencing techniques have been developed and successfully employed frequently with carnivores, herbivorous animals may present additional challenges due to chemical inhibitors present in plants, and fewer genetic barcoding resources for local plant communities.

As a consequence, there are very few examples of herbivorous PCR-based diet studies currently found in the scientific literature.
Related Programs

U.S. Geological Survey_ Research and Data Collection

Department of the Interior

Agency: Department of the Interior

Office: Geological Survey

Estimated Funding: $2,000,000

Obtain Full Opportunity Text:
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Additional Information of Eligibility:
This financial assistance opportunity is being issued under a Cooperative Ecosystem Studies Unit (CESU) Program.

CESU’s are partnerships that provide research, technical assistance, and education.

Eligible recipients must be a participating partner of the Chesapeake Watershed Cooperative Ecosystem Studies Unit (CESU) Program.

one post-doc or graduate-student to serve as Principle Investigator.

Demonstrated experience in field collections for both plants and aquatic species.

Demonstrated knowledge of the Illumina MiSeq and next-generation sequencing.

Experience using R and other software for bioinformatics of high throughput sequence data and data visualization (for example: FASTQC, ggplot2, CLC Genomics Workbench) to tabulate, organize, summarize, and analyze and present genetic or genomic data is required.

Experience with Linux and processing genomic sequence data is beneficial but not required.

Familiarity with issues associated with sampling and extracting a wide variety of samples is preferred.

Knowledge of issues associated diet studies, invasive aquatic species, honey bees or coral.

Publication of at least one lead author manuscript is desired as well as experience working within a dynamic, multidisciplinary teams both in the field and in laboratories is a plus.

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