Targeted Environmental DNA/RNA Sequencing

Accurately achieve comprehensive sequencing of any target type from complex environmental DNA (eDNA/RNA) samples with myBaits® hybridization capture kits and myReads® NGS services.

Overcoming Challenges of eDNA/RNA Sequencing: 

Next-generation sequencing (NGS) can be used for whole genome sequencing (WGS) or metagenomic applications for community profiling, infectious disease surveillance, epidemiology, phylogenetics, and much more. However, it can be expensive to perform WGS and laborious to analyze large NGS datasets from complex samples like those from environmental sources, which always include a variety of microbials with different abundance. But with the power of hybridization capture based myBaits® Custom kits, comprehensive sequencing of DNA or RNA targets from complex environmental samples – is within reach! Hybridization capture is the most efficient NGS technique for enriching low copy number of DNA/RNA samples to identify novel variants and to produce more comprehensive microbial profiles.

Benefits of myBaits Enrichment for eDNA/eRNA: 

High sensitivity: Hybridization capture maximizes potential for enriching novel genetic content for new variant discovery and/or new strain detection

Reduction in cost: Deliver significant savings by sequencing and analyzing only target genes/genomes of interest

Broad applications: Metagenomics, whole genome sequencing, gene families, phylogenetics

Flexible sample type: Sequence any DNA/RNA source, such as bacteria, virus, plant, animal, or human

Streamlined workflow: User-friendly myBaits kit integrates into any NGS workflow for short- or long-read sequencing

Our Products:  

If one of Daicel Arbor Biosciences’s pre-existing custom panels doesn’t suit your needs, we include probe design bioinformatics services with every myBaits Custom kit, so your kit will be optimized precisely for your research needs. 

Interested in a full-service solution? Our myReads® NGS services laboratory can perform the entire NGS workflow from DNA/RNA through sequencing and bioinformatics. 

Contact us today to get started on your next eDNA or eRNA project! 

Featured Publications

Listed below are some studies which have utilized myBaits target capture kits for their research on microbes, animals, and more from environmental DNA or RNA samples. 

Microbes: Bacteria + Viruses 

Alfano, N., Dayaram, A., Axtner, J., Tsangaras, K., Kampmann, M., Mohamed, A., Wong, S. T., Gilbert, M. T. P., Wilting, A., & Greenwood, A. D. (2021). Non‐invasive surveys of mammalian viruses using environmental DNA. Methods in Ecology and Evolution 

Beaudry, M. S., Thomas, J. C., Baptista, R. P., Sullivan, A. H., Norfolk, W., Devault, A., Enk, J., Kieran, T. J., Rhodes, O. E., Perry‐Dow, K. A., Rose, L. J., Bayona‐Vásquez, N. J., Oladeinde, A., Lipp, E. K., Sanchez, S., & Glenn, T. C. (2021). Escaping the fate of Sisyphus: Assessing resistome hybridization baits for antimicrobial resistance gene capture. Environmental Microbiology. 

Beaudry, M. S., Wang, J., Kieran, T. J., Thomas, J., Bayona-Vásquez, N. J., Gao, B., Devault, A., Brunelle, B., Lu, K., Wang, J.-S., Rhodes, O. E., & Glenn, T. C. (2021). Improved Microbial Community Characterization of 16S rRNA via Metagenome Hybridization Capture Enrichment. Frontiers in Microbiology.  

Dayaram, A., Seeber, P., Courtiol, A., Soilemetzidou, S., Tsangaras, K., Franz, M., McEwen, G., Azab, W., Kaczensky, P., Melzheimer, J., East, M., Ganbaatar, O., Walzer, C., Osterrieder, N., & Greenwood, A. D. (2021). Seasonal host and ecological drivers may promote restricted water as a viral vector. Science of The Total Environment 

Links, M. G., Dumonceaux, T. J., McCarthy, E. L., Hemmingsen, S. M., Topp, E., & Town, J. R. (2021). CaptureSeq: Hybridization-Based Enrichment of cpn60 Gene Fragments Reveals the Community Structures of Synthetic and Natural Microbial Ecosystems. Microorganisms 

Patrono, L. V., Pléh, K., Samuni, L., Ulrich, M., Röthemeier, C., Sachse, A., Muschter, S., Nitsche, A., Couacy-Hymann, E., Boesch, C., Wittig, R. M., Calvignac-Spencer, S., & Leendertz, F. H. (2020). Monkeypox virus emergence in wild chimpanzees reveals distinct clinical outcomes and viral diversity. Nature Microbiology 

Verma, R., Moreira, F. M. F., Morais, A. O. do P., Walter, K. S., Santos, P. C. P. dos, Kim, E., Soares, T. R., Araujo, R. C. P. de, Silva, B. O. da, Santos, A. da S., Croda, J., & Andrews, J. R. (2022). Detection of M. tuberculosis in the environment as a tool for identifying high-risk locations for tuberculosis transmission (p. 2022.04.27.22274350). medRxiv.  

Vezzulli, L., Grande, C., Tassistro, G., Brettar, I., Höfle, M. G., Pereira, R. P. A., Mushi, D., Pallavicini, A., Vassallo, P., & Pruzzo, C. (2017). Whole-Genome Enrichment Provides Deep Insights into Vibrio cholerae Metagenome from an African River. Microbial Ecology 

Animals, Fungi, and Plants 

Anthony, M. A., Stinson, K. A., Moore, J. A. M., & Frey, S. D. (2020). Plant invasion impacts on fungal community structure and function depend on soil warming and nitrogen enrichment. Oecologia 

Aylward, M. L., Sullivan, A. P., Perry, G. H., Johnson, S. E., & Louis, E. E. (2018). An environmental DNA sampling method for aye-ayes from their feeding traces. Ecology and Evolution 

Jensen, M. R., Sigsgaard, E. E., Liu, S., Manica, A., Bach, S. S., Hansen, M. M., Møller, P. R., & Thomsen, P. F. (2020). Genome-scale target capture of mitochondrial and nuclear environmental DNA from water samples. Molecular Ecology Resources 

Moore, J. A. M., Anthony, M. A., Pec, G. J., Trocha, L. K., Trzebny, A., Geyer, K. M., Diepen, L. T. A., & Frey, S. D. (2021). Fungal community structure and function shifts with atmospheric nitrogen deposition. Global Change Biology 

Murchie, T. J., Kuch, M., Duggan, A. T., Ledger, M. L., Roche, K., Klunk, J., Karpinski, E., Hackenberger, D., Sadoway, T., MacPhee, R., Froese, D., & Poinar, H. (2021). Optimizing extraction and targeted capture of ancient environmental DNA for reconstructing past environments using the PalaeoChip Arctic-1.0 bait-set. Quaternary Research 

Seeber, P. A., McEwen, G. K., Löber, U., Förster, D. W., East, M. L., Melzheimer, J., & Greenwood, A. D. (2019). Terrestrial mammal surveillance using hybridization capture of environmental DNA from African waterholes. Molecular Ecology Resources.  

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