PAG 2023 Website

Daicel Arbor Biosciences – Booth #310

Welcome to the PAG 2023 web page for Daicel Arbor Biosciences. Thank you for visiting. Please click on one of the sections below for additional information.

Our Industry Workshops

Location: Pacific C

Date: Monday, January 16, 12:50 p.m., PT


12:50 p.m. Introductory Remarks
Sofia Granja Martins, MSc – University of Oxford – UK (Presenting Author) – 1:00 p.m. Adventures in Capturing Mitochondrial Genomes from Ancient DNA Libraries
Junli Zhang, Ph.D. – University of California, Davis – USA (Presenting Author) 1:25 p.m. A Second Generation Capture Panel for Cost-Effective Sequencing of Genome Regulatory Regions in Wheat and Relatives
Alexandre R. Zuntini, Ph.D. – Royal Botanic Gardens, Kew – UK (Presenting Author) – 1:50 p.m. (TBD)

In this workshop, we will hear from researchers from the University of Oxford, the University of California, Davis, and the Royal Botanic Gardens, Kew about their recent work on plant and animal applications of phylogenetics, functional genomics, and evolutionary biology, all enabled by the myBaits® targeted next-generation sequencing (NGS) system from Daicel Arbor Biosciences.

Poster Presentations from Daicel Arbor Biosciences & Collaborators

Number PO0067

Authors: Alison Devault, Ph.D. (Daicel Arbor Biosciences) 

With the recent launch of multiple novel high-throughput sequencing (HTS) platforms, the landscape of HTS workflow options is richer than ever before. Choosing a targeted sequencing solution that is compatible with sequencing on any current or future HTS platform is important for maximizing the utility of a given assay. The myBaits® hybridization capture system from Daicel Arbor Biosciences is by design universally compatible with virtually any HTS workflow, whether short- or long-read. With highly versatile custom probe design algorithms and platform-agnostic protocol options, myBaits is a robust solution for achieving any DNA or RNA targeted sequencing need for any species or sample type. In this poster, we highlight the technical features of myBaits that permit its unique versatility in the modern HTS landscape, including data examples demonstrating its universal application with both short- and long-read HTS platforms relevant to the plant and animal genomics community. 

View Poster

Number PE0068

Authors: Linda Barthel, Jake Enk, Tina Lan, Benjamin Steil (Daicel Arbor Biosciences) 

Abstract: In situ hybridization (ISH) probes built from pools of synthetic single-stranded oligonucleotides are more specific and versatile than probes derived from BACs and other biological sources. The myTags® Custom ISH probe system from Daicel Arbor Biosciences utilizes a sophisticated in silico design process to identify and eliminate repetitive and other nonspecific elements that BAC-derived probes typically retain. Here we demonstrate the high specificity of customized myTags probe sets compared to BAC-derived alternatives, and outline design and experimental recommendations key to plant and animal genomics applications where enhanced specificity and versatility is critical. Combined with flexible synthesis and reporter labeling configurations, myTags represents an ideal and cost-effective toolset for a wide variety of genomics applications including chromosome painting and identification, haplotyping, and 3D/4D spatial genomics analysis. 

View Poster

Sponsored Workshops

Location: Town and County A

Date: Sunday, January 15, 2023 – 1:30 p.m. PT

Location: Pacific H-I (2nd floor) 

Date: Sunday, January 15, 2023 – 4:00 p.m. PT

Location: Pacific C

Date: Sunday, January 15, 2023 – 8:00 a.m. PT

Product Sheets and Application Notes

From Our Partners

Location: Town and Country B

Date: Tuesday, January 17, 2023 – 4:00 p.m. PT

Speaker: Shawn QuinnCurio GenomicsUSA

Workshop: IWGSC – From Structural to Functional Wheat Genomics 

Have questions for our technical team? Would you like to meet with us at PAG? Please complete this form

to contact us!

myTagsmyTags Custom FISH Probes

myReadsmyReads NGS Services

myBaits myBaits Expert Wheat Exome Panel

myBaitsmyBaits Custom Panels

Protein Engineering Biocatalysis Congress 2022

ASV Conference 2022

Booth #1

Madison, Wisconsin

myBaits® Featured Publications for Viral Research
Please browse some recent publications utilizing targeted sequencing with myBaits® kits and/or myReads® services.

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, 12(10), 1941–1952.

Alfsnes, K., Eldholm, V., Gaunt, M. W., de Lamballerie, X., Gould, E. A., & Pettersson, J. H.-O. (2021). Tracing and tracking the emergence, epidemiology and dispersal of dengue virus to Africa during the 20th century. One Health, 13, 100337.

Binder, F., Reiche, S., Roman-Sosa, G., Saathoff, M., Ryll, R., Trimpert, J., Kunec, D., Höper, D., & Ulrich, R. G. (2020). Isolation and characterization of new Puumala orthohantavirus strains from Germany. Virus Genes, 56(4), 448–460.

Bokelmann, M., Vogel, U., Debeljak, F., Düx, A., Riesle-Sbarbaro, S., Lander, A., Wahlbrink, A., Kromarek, N., Neil, S., Couacy-Hymann, E., Prescott, J., & Kurth, A. (2021). Tolerance and Persistence of Ebola Virus in Primary Cells from Mops condylurus, a Potential Ebola Virus Reservoir. Viruses, 13(11), 2186.

Burrel, S., Boutolleau, D., Ryu, D., Agut, H., Merkel, K., Leendertz, F. H., & Calvignac-Spencer, S. (2017). Ancient Recombination Events between Human Herpes Simplex Viruses. Molecular Biology and Evolution, 34(7), 1713–1721.

Calvelage, S., Tammiranta, N., Nokireki, T., Gadd, T., Eggerbauer, E., Zaeck, L. M., Potratz, M., Wylezich, C., Höper, D., Müller, T., Finke, S., & Freuling, C. M. (2021). Genetic and Antigenetic Characterization of the Novel Kotalahti Bat Lyssavirus (KBLV). Viruses, 13(1), 69.

Carrai, M., Van Brussel, K., Shi, M., Li, C.-X., Chang, W.-S., Munday, J. S., Voss, K., McLuckie, A., Taylor, D., Laws, A., Holmes, E. C., Barrs, V. R., & Beatty, J. A. (2020). Identification of a Novel Papillomavirus Associated with Squamous Cell Carcinoma in a Domestic Cat. Viruses, 12(1), 124.

Caruso, L. B., Guo, R., Keith, K., Madzo, J., Maestri, D., Boyle, S., Wasserman, J., Kossenkov, A., Gewurz, B. E., & Tempera, I. (2022). The nuclear lamina binds the EBV genome during latency and regulates viral gene expression. PLOS Pathogens, 18(4), e1010400.

Colson, P., Dhiver, C., Tamalet, C., Delerce, J., Glazunova, O. O., Gaudin, M., Levasseur, A., & Raoult, D. (2020). Dramatic HIV DNA degradation associated with spontaneous HIV suppression and disease-free outcome in a young seropositive woman following her infection. Scientific Reports, 10(1), 1–9.

Dashdorj, N. J., Dashdorj, N. D., Mishra, M., Danzig, L., Briese, T., Lipkin, W. I., & Mishra, N. (2022). Molecular and Serologic Investigation of the 2021 COVID-19 Case Surge Among Vaccine Recipients in Mongolia. JAMA Network Open, 5(2), e2148415.

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, 145446.

Di Giallonardo, F., Duchene, S., Puglia, I., Curini, V., Profeta, F., Cammà, C., Marcacci, M., Calistri, P., Holmes, E. C., & Lorusso, A. (2020). Genomic Epidemiology of the First Wave of SARS-CoV-2 in Italy. Viruses, 12(12), 1438.

Doremalen, N. van, Purushotham, J. N., Schulz, J. E., Holbrook, M. G., Bushmaker, T., Carmody, A., Port, J. R., Yinda, C. K., Okumura, A., Saturday, G., Amanat, F., Krammer, F., Hanley, P. W., Smith, B. J., Lovaglio, J., Anzick, S. L., Barbian, K., Martens, C., Gilbert, S. C., … Munster, V. J. (2021). Intranasal ChAdOx1 nCoV-19/AZD1222 vaccination reduces viral shedding after SARS-CoV-2 D614G challenge in preclinical models. Science Translational Medicine.

Duggan, A. T., Klunk, J., Porter, A. F., Dhody, A. N., Hicks, R., Smith, G. L., Humphreys, M., McCollum, A. M., Davidson, W. B., Wilkins, K., Li, Y., Burke, A., Polasky, H., Flanders, L., Poinar, D., Raphenya, A. R., Lau, T. T. Y., Alcock, B., McArthur, A. G., … Poinar, H. N. (2020). The origins and genomic diversity of American Civil War Era smallpox vaccine strains. Genome Biology, 21(1), 175.

Duggan, A. T., Perdomo, M. F., Piombino-Mascali, D., Marciniak, S., Poinar, D., Emery, M. V., Buchmann, J. P., Duchêne, S., Jankauskas, R., Humphreys, M., Golding, G. B., Southon, J., Devault, A., Rouillard, J.-M., Sahl, J. W., Dutour, O., Hedman, K., Sajantila, A., Smith, G. L., … Poinar, H. N. (2016). 17th Century Variola Virus Reveals the Recent History of Smallpox. Current Biology, 26(24), 3407–3412.

Fischer, R. J., van Doremalen, N., Adney, D. R., Yinda, C. K., Port, J. R., Holbrook, M. G., Schulz, J. E., Williamson, B. N., Thomas, T., Barbian, K., Anzick, S. L., Ricklefs, S., Smith, B. J., Long, D., Martens, C., Saturday, G., de Wit, E., Gilbert, S. C., Lambe, T., & Munster, V. J. (2021). ChAdOx1 nCoV-19 (AZD1222) protects Syrian hamsters against SARS-CoV-2 B.1.351 and B.1.1.7. Nature Communications, 12(1), 5868.

Forth, J. H., Forth, L. F., King, J., Groza, O., Hübner, A., Olesen, A. S., Höper, D., Dixon, L. K., Netherton, C. L., Rasmussen, T. B., Blome, S., Pohlmann, A., & Beer, M. (2019). A Deep-Sequencing Workflow for the Fast and Efficient Generation of High-Quality African Swine Fever Virus Whole-Genome Sequences. Viruses, 11(9), 846.

Forth, J. H., Tignon, M., Cay, A. B., Forth, L. F., Höper, D., Blome, S., & Beer, M. (2019). Comparative Analysis of Whole-Genome Sequence of African Swine Fever Virus Belgium 2018/1. Emerging Infectious Diseases, 25(6).

Hartley, P. D., Tillett, R. L., AuCoin, D. P., Sevinsky, J. R., Xu, Y., Gorzalski, A., Pandori, M., Buttery, E., Hansen, H., Picker, M. A., Rossetto, C. C., & Verma, S. C. (2021). Genomic surveillance of Nevada patients revealed prevalence of unique SARS-CoV-2 variants bearing mutations in the RdRp gene. Journal of Genetics and Genomics, 48(1), 40–51.

Hirschbühl, K., Schaller, T., Märkl, B., Claus, R., Sipos, E., Rentschler, L., Maccagno, A., Grosser, B., Kling, E., Neidig, M., Kröncke, T., Spring, O., Braun, G., Bösmüller, H., Seidl, M., Esposito, I., Pablik, J., Hilsenbeck, J., Boor, P., … Wylezich, C. (2022). High viral loads: What drives fatal cases of COVID-19 in vaccinees? – an autopsy study. Modern Pathology, 1–9.

Kaymaz, Y., Oduor, C. I., Aydemir, O., Luftig, M. A., Otieno, J. A., Ong’echa, J. M., Bailey, J. A., & Moormann, A. M. (2020). Epstein-Barr Virus Genomes Reveal Population Structure and Type 1 Association with Endemic Burkitt Lymphoma. Journal of Virology, 94(17), e02007-19.

Keita, A. K., Koundouno, F. R., Faye, M., Düx, A., Hinzmann, J., Diallo, H., Ayouba, A., Le Marcis, F., Soropogui, B., Ifono, K., Diagne, M. M., Sow, M. S., Bore, J. A., Calvignac-Spencer, S., Vidal, N., Camara, J., Keita, M. B., Renevey, A., Diallo, A., … Magassouba, N. F. (2021). Resurgence of Ebola virus in 2021 in Guinea suggests a new paradigm for outbreaks. Nature, 1–5.

Lam, W. K. J., Ji, L., Tse, O. Y. O., Cheng, S. H., Jiang, P., Lee, P. H. P., Lin, S. V., Hui, E. P., Ma, B. B. Y., Chan, A. T. C., Chan, K. C. A., Chiu, R. W. K., & Lo, Y. M. D. (2020). Sequencing Analysis of Plasma Epstein-Barr Virus DNA Reveals Nasopharyngeal Carcinoma-Associated Single Nucleotide Variant Profiles. Clinical Chemistry.

Mehta, S. K., Szpara, M. L., Rooney, B. V., Diak, D. M., Shipley, M. M., Renner, D. W., Krieger, S. S., Nelman-Gonzalez, M. A., Zwart, S. R., Smith, S. M., & Crucian, B. E. (2022). Dermatitis during Spaceflight Associated with HSV-1 Reactivation. Viruses, 14(4), 789.

Mielonen, O. I., Pratas, D., Hedman, K., Sajantila, A., & Perdomo, M. F. (2022). Detection of Low-Copy Human Virus DNA upon Prolonged Formalin Fixation. Viruses, 14(1), 133.

Mileto, P., da Conceição, F., Stevens, V., Cummins, D., Certoma, A., Neave, M. J., Bendita da Costa Jong, J., & Williams, D. T. (2021). Complete Genome Sequence of African Swine Fever Virus Isolated from a Domestic Pig in Timor-Leste, 2019. Microbiology Resource Announcements, 10(26), e00263-21.

Mishra, M., Zahra, A., Chauhan, L. V., Thakkar, R., Ng, J., Joshi, S., Spitzer, E. D., Marcos, L. A., Lipkin, W. I., & Mishra, N. (2022). A Short Series of Case Reports of COVID-19 in Immunocompromised Patients. Viruses, 14(5), 934.

Mollerup, S., Asplund, M., Friis-Nielsen, J., Kjartansdóttir, K. R., Fridholm, H., Hansen, T. A., Herrera, J. A. R., Barnes, C. J., Jensen, R. H., Richter, S. R., Nielsen, I. B., Pietroni, C., Alquezar-Planas, D. E., Rey-Iglesia, A., Olsen, P. V. S., Rajpert-De Meyts, E., Groth-Pedersen, L., von Buchwald, C., Jensen, D. H., … Hansen, A. J. (2019). High-Throughput Sequencing-Based Investigation of Viruses in Human Cancers by Multienrichment Approach. The Journal of Infectious Diseases, 220(8), 1312–1324.

Morgan, S. M., Tanizawa, H., Caruso, L. B., Hulse, M., Kossenkov, A., Madzo, J., Keith, K., Tan, Y., Boyle, S., Lieberman, P. M., & Tempera, I. (2022). The three-dimensional structure of Epstein-Barr virus genome varies by latency type and is regulated by PARP1 enzymatic activity. Nature Communications, 13(1), 187.

Munster, V. J., Flagg, M., Singh, M., Yinda, C. K., Williamson, B. N., Feldmann, F., Pérez-Pérez, L., Schulz, J., Brumbaugh, B., Holbrook, M. G., Adney, D. R., Okumura, A., Hanley, P. W., Smith, B. J., Lovaglio, J., Anzick, S. L., Martens, C., van Doremalen, N., Saturday, G., & de Wit, E. (2021). Subtle differences in the pathogenicity of SARS-CoV-2 variants of concern B.1.1.7 and B.1.351 in rhesus macaques. Science Advances, 7(43), eabj3627.

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, 5(7), 955–965.

Patrono, L. V., Röthemeier, C., Kouadio, L., Couacy‐Hymann, E., Wittig, R. M., Calvignac‐Spencer, S., & Leendertz, F. H. (2022). Non‐invasive genomics of respiratory pathogens infecting wild great apes using hybridisation capture. Influenza and Other Respiratory Viruses, irv.12984.

Pfaff, F., Breithaupt, A., Rubbenstroth, D., Nippert, S., Baumbach, C., Gerst, S., Langner, C., Wylezich, C., Ebinger, A., Höper, D., Ulrich, R. G., & Beer, M. (2022). Revisiting Rustrela Virus: New Cases of Encephalitis and a Solution to the Capsid Enigma. Microbiology Spectrum, 10(2), e00103-22.

Port, J. R., Adney, D. R., Schwarz, B., Schulz, J. E., Sturdevant, D. E., Smith, B. J., Avanzato, V. A., Holbrook, M. G., Purushotham, J. N., Stromberg, K. A., Leighton, I., Bosio, C. M., Shaia, C., & Munster, V. J. (2021). High-Fat High-Sugar Diet-Induced Changes in the Lipid Metabolism Are Associated with Mildly Increased COVID-19 Severity and Delayed Recovery in the Syrian Hamster. Viruses, 13(12), 2506.

Port, J. R., Yinda, C. K., Avanzato, V. A., Schulz, J. E., Holbrook, M. G., van Doremalen, N., Shaia, C., Fischer, R. J., & Munster, V. J. (2022). Increased small particle aerosol transmission of B.1.1.7 compared with SARS-CoV-2 lineage A in vivo. Nature Microbiology, 1–11.

Port, J. R., Yinda, C. K., Owusu, I. O., Holbrook, M., Fischer, R., Bushmaker, T., Avanzato, V. A., Schulz, J. E., Martens, C., van Doremalen, N., Clancy, C. S., & Munster, V. J. (2021). SARS-CoV-2 disease severity and transmission efficiency is increased for airborne compared to fomite exposure in Syrian hamsters. Nature Communications, 12(1), 4985.

Rathbun, M. M., Shipley, M. M., Bowen, C. D., Selke, S., Wald, A., Johnston, C., & Szpara, M. L. (2022). Comparison of herpes simplex virus 1 genomic diversity between adult sexual transmission partners with genital infection. PLOS Pathogens, 18(5), e1010437.

Ross, Z. P., Klunk, J., Fornaciari, G., Giuffra, V., Duchêne, S., Duggan, A. T., Poinar, D., Douglas, M. W., Eden, J.-S., Holmes, E. C., & Poinar, H. N. (2018). The paradox of HBV evolution as revealed from a 16th century mummy. PLOS Pathogens, 14(1), e1006750.

Santos, P. D., Michel, F., Wylezich, C., Höper, D., Keller, M., Holicki, C. M., Szentiks, C. A., Eiden, M., Muluneh, A., Neubauer‐Juric, A., Thalheim, S., Globig, A., Beer, M., Groschup, M. H., & Ziegler, U. (2022). Co-Infections: Simultaneous Detections of West Nile Virus and Usutu Virus in Birds from Germany. Transboundary and Emerging Diseases, 69(2), 776-792.

Schilling-Loeffler, K., Viera-Segura, O., Corman, V. M., Schneider, J., Gadicherla, A. K., Schotte, U., & Johne, R. (2021). Cell Culture Isolation and Whole Genome Characterization of Hepatitis E Virus Strains from Wild Boars in Germany. Microorganisms, 9(11), 2302.

Shobayo, B., Mishra, M., Sameroff, S., Petrosov, A., Ng, J., Gokden, A., MaCauley, J., Jain, K., Renken, C., Duworko, J. T., Badio, M., Jallah, W., Hensley, L., Briese, T., Lipkin, W. I., & Mishra, N. (2021). SARS-CoV-2 Sequence Analysis during COVID-19 Case Surge, Liberia, 2021. Emerging Infectious Diseases, 27(12), 3185–3188.

Stoek, F., Barry, Y., Ba, A., Schulz, A., Rissmann, M., Wylezich, C., Sadeghi, B., Beyit, A. D., Eisenbarth, A., N’diaye, F. B., Haki, M. L., Doumbia, B. A., Gueya, M. B., Bah, M. Y., Eiden, M., & Groschup, M. H. (2022). Mosquito survey in Mauritania: Detection of Rift Valley fever virus and dengue virus and the determination of feeding patterns. PLOS Neglected Tropical Diseases, 16(4), e0010203.

Tillett, R. L., Sevinsky, J. R., Hartley, P. D., Kerwin, H., Crawford, N., Gorzalski, A., Laverdure, C., Verma, S. C., Rossetto, C. C., Jackson, D., Farrell, M. J., Hooser, S. V., & Pandori, M. (2020). Genomic evidence for reinfection with SARS-CoV-2: A case study. The Lancet Infectious Diseases, 21(1), P52-58.

Toppinen, M., Sajantila, A., Pratas, D., Hedman, K., & Perdomo, M. F. (2021). The Human Bone Marrow Is Host to the DNAs of Several Viruses. Frontiers in Cellular and Infection Microbiology, 11.

Ulrich, L., Halwe, N. J., Taddeo, A., Ebert, N., Schön, J., Devisme, C., Trüeb, B. S., Hoffmann, B., Wider, M., Fan, X., Bekliz, M., Essaidi-Laziosi, M., Schmidt, M. L., Niemeyer, D., Corman, V. M., Kraft, A., Godel, A., Laloli, L., Kelly, J. N., … Benarafa, C. (2022). Enhanced fitness of SARS-CoV-2 variant of concern Alpha but not Beta. Nature, 602(7896), 307–313.

Williamson, B. N., Feldmann, F., Schwarz, B., Meade-White, K., Porter, D. P., Schulz, J., van Doremalen, N., Leighton, I., Yinda, C. K., Pérez-Pérez, L., Okumura, A., Lovaglio, J., Hanley, P. W., Saturday, G., Bosio, C. M., Anzick, S., Barbian, K., Cihlar, T., Martens, C., … de Wit, E. (2020). Clinical benefit of remdesivir in rhesus macaques infected with SARS-CoV-2. Nature, 585(7824), 273–276.

Wylezich, C., Calvelage, S., Schlottau, K., Ziegler, U., Pohlmann, A., Höper, D., & Beer, M. (2021). Next-generation diagnostics: Virus capture facilitates a sensitive viral diagnosis for epizootic and zoonotic pathogens including SARS-CoV-2. Microbiome, 9(1), 51.

Evolution Conference – in person conference June 24-28, 2022

Booths are centrally located in Exhibit Hall C.

myBaits® Featured Publications 
Please browse some recent publications utilizing targeted sequencing with myBaits® kits and/or myReads® services for evolutionary biology and ecology research in plants, animals, and more.

Bataillon, T., Gauthier, P., Villesen, P., Santoni, S., Thompson, J. D., & Ehlers, B. K. (2022). From genotype to phenotype: Genetic redundancy and the maintenance of an adaptive polymorphism in the context of high gene flow. Evolution Letters, evl3.277.

Derkarabetian, S., Starrett, J., & Hedin, M. (2022). Using natural history to guide supervised machine learning for cryptic species delimitation with genetic data. Frontiers in Zoology, 19(1), 8.

Hart, P. B., Arnold, R. J., Alda, F., Kenaley, C. P., Pietsch, T. W., Hutchinson, D., & Chakrabarty, P. (2022). Evolutionary Relationships Of Anglerfishes (Lophiiformes) Reconstructed Using Ultraconserved Elements. Molecular Phylogenetics and Evolution, 107459.

Kearns, A. M., Campana, M. G., Slikas, B., Berry, L., Saitoh, T., Cibois, A., & Fleischer, R. C. (2022). Conservation genomics and systematics of a near-extinct island radiation. Molecular Ecology, 31(7), 1995-2012.

Manuzzi, A., Jiménez-Mena, B., Henriques, R., Holmes, B. J., Pepperell, J., Edson, J., Bennett, M. B., Huveneers, C., Ovenden, J. R., & Nielsen, E. E. (2022). Retrospective genomics highlights changes in genetic composition of tiger sharks (Galeocerdo cuvier) and potential loss of a south-eastern Australia population. Scientific Reports, 12(1), 6582.

Montes, J., Peláez, P., Moreno‐Letelier, A., & Gernandt, D. S. (2022). Coalescent‐based species delimitation in North American pinyon pines using low‐copy nuclear genes and plastomes. American Journal of Botany, ajb2.1847.

Parker, L. D., Campana, M. G., Quinta, J. D., Cypher, B., Rivera, I., Fleischer, R. C., Ralls, K., Wilbert, T. R., Boarman, R., Boarman, W. I., & Maldonado, J. E. (2022). An efficient method for simultaneous species, individual, and sex identification via in‐solution single nucleotide polymorphism capture from low‐quality scat samples. Molecular Ecology Resources, 22(4), 1345–1361.

Patrono, L. V., Röthemeier, C., Kouadio, L., Couacy‐Hymann, E., Wittig, R. M., Calvignac‐Spencer, S., & Leendertz, F. H. (2022). Noninvasive genomics of respiratory pathogens infecting wild great apes using hybridisation capture. Influenza and Other Respiratory Viruses, irv.12984.

Singhal, S., Colli, G. R., Grundler, M. R., Costa, G. C., Prates, I., & Rabosky, D. L. (2022). No link between population isolation and speciation rate in squamate reptiles. Proceedings of the National Academy of Sciences, 119(4).

Stiller, J., Short, G., Hamilton, H., Saarman, N., Longo, S., Wainwright, P., Rouse, G. W., & Simison, W. B. (2022). Phylogenomic analysis of Syngnathidae reveals novel relationships, origins of endemic diversity and variable diversification rates. BMC Biology, 20(1), 75.

Stoek, F., Barry, Y., Ba, A., Schulz, A., Rissmann, M., Wylezich, C., Sadeghi, B., Beyit, A. D., Eisenbarth, A., N’diaye, F. B., Haki, M. L., Doumbia, B. A., Gueya, M. B., Bah, M. Y., Eiden, M., & Groschup, M. H. (2022). Mosquito survey in Mauritania: Detection of Rift Valley fever virus and dengue virus and the determination of feeding patterns. PLOS Neglected Tropical Diseases, 16(4), e0010203.

Weise, E. M., Scribner, K. T., Adams, J. V., Boeberitz, O., Jubar, A. K., Bravener, G., Johnson, N. S., & Robinson, J. D. (2022). Pedigree analysis and estimates of effective breeding size characterize sea lamprey reproductive biology Evolutionary Applications, eva.13364.

The Essential Protein Engineering & Cell Therapy Summit

PAG 2022 Website

Daicel Arbor Biosciences – Booth #310

We are sorry that PAG was canceled. Our scientists really want to meet you virtually to learn about your scientific achievements and to discuss your new projects. You can use the ZOOM Meeting link here from 9:00 a.m. to 5:00 p.m., EST, on January 10, to talk to our scientists. Please click here for link. 

Welcome to the PAG 2022 web page for Daicel Arbor Biosciences. Thank you for visiting. Please click on one of the sections below for additional information.

Our Industry Workshops

Location: Palm 1-2

Date: Monday, January 10, 12:50 p.m.


Jacob Enk, PhD (Daicel Arbor Biosciences) – 12:55 p.m. PT – Introduction to Renseq from Daicel Arbor Biosciences
Sanu Arora, PhD (John Innes Centre) – 1:15 p.m. PT – Understanding the Genetic Basis of Disease Resistance in Peas
Ingo Hein, PhD (James Hutton Institute) – 1:35 p.m. PT
Tim Hewitt, PhD (CSIRO) – 1:55 p.m. PT – Target Acquired: Using Renseq on Knockout Mutants to Rapidly Clone R Genes in Wheat

The resistance gene enrichment sequencing (RenSeq) workflow supports the comprehensive study of highly complex disease resistance gene (R-gene) families within crop plant genomes. Over the last few years, RenSeq and related NGS approaches have been utilized in or contributed to hundreds of studies across a wide range of plant species. In this workshop, we will highlight the major principles, benefits, and recent advances of RenSeq, and hear from several leading researchers who are actively utilizing it and related NGS techniques in their crop research programs, facilitated by myBaits® Custom hybridization capture kits. 

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Poster Presentations from Daicel Arbor Biosciences & Collaborators

Number PE0340

Authors: Junli Zhang, German Burguener, Juan Debernardi, Frederic Choulet, Etienne PauxJacob Enk, Jorge Dubcovsky

As genome resources for wheat expand at a rapid pace, it is important to update targeted sequencing tools to incorporate improved sequence assemblies and regions of previously unknown significance. Here we present a regulatory region NGS hybridization capture panel developed for hexaploid and tetraploid wheat. We used the upstream ~2 kbp of each annotated gene in the most up-to-date Chinese Spring wheat genome assembly as the primary target source, supplemented with homologous sequences from a draft assembly of tetraploid Kronos wheat as well as regions of observed open chromatin state identified with ATACseq. To improve specificity compared to similar legacy designs, candidate repetitive sequences were aggressively filtered using a combination of cross-alignment clustering, TREP19 affinity filtration, and kmer frequency capping. Once converted to candidate probes, these were once again filtered for specificity using a standard design pipeline, resulting in a final target space of ~175 Mbp relative to the IWGSC RefSeq v1.0 genome. Test captures using the probe set on both hexaploid and tetraploid wheat exhibit excellent coverage of the target with significantly improved specificity compared to captures performed using legacy probe designs. Captures of 24 lines from the Kronos TILLING population (EMS-induced mutations) detected an average of ~3300 mutations per line (~5 million predicted mutations in the complete TILLING population of 1500 lines). This probe set is available through Daicel Arbor Biosciences as either a stand-alone capture kit or a full service option from library prep through secondary bioinformatics analysis.

[ab_icon icon=”file-pdf-o”] Poster – PAG XXIX – Genomic Regulatory Element Sequencing in Wheat

Number PO0409

Authors: Brian Brunelle, Alison Devault, Jacob Enk and Tina Lan, Daicel Arbor Biosciences, Ann Arbor, MI 

The detection of pathogenic variants and pathobiome profiling in plant and animal samples using next-generation sequencing (NGS) is often impeded by the dominant host/background DNA and/or RNA, necessitating extremely deep total NGS in order to accurately resolve genomes/genes of interest or to fully characterize community members. Targeted NGS methods can dramatically reduce the overall costs of sequencing and data analysis per sample. Of the available targeted NGS methods, hybridization capture is the best technique for comprehensive, low-bias, and cost-effective genome or community sequencing of viruses and bacteria from complex samples. Here we review the principles of hybridization capture for microbial sequencing applications, and highlight several peer-reviewed studies relevant to the plant and animal research community, powered by efficient myBaits® target capture kits. 

[ab_icon icon=”file-pdf-o”] Poster – PAG XXIX – Simplified Pathogen and Commensal Sequencing

Sponsored Workshops

Location: Pacific C

Date: Sunday, January 9, 8:00 a.m.

Duration: 2 hours, 10 minutes

The Feline & Canine Workshop includes presentations of recent genetic studies involving cats, dogs, and their wild relatives. Topics include the basis of morphology, behavior, and inherited disease, conservation, evolution, paleogenomics, genetic testing, and genomic resource development. This session is generously sponsored by Daicel Arbor Biosciences, ThermoFisher, Embark, Hills, Nippon Genetics, and Retsch.

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Location: Town and Country C

Date: Sunday, January 9, 10:30 a.m.

Duration: 2 hours, 10 minutes

Though the first DNA sequences from an extinct organism were first extracted 30 years ago, the revolution in sequencing technology has recently allowed for the retrieval and characterization of ancient organisms dating back more than 50,000 years. This new capability has been used to address questions related to admixture, phylogenetic inference, and evolution writ large. This session will attract leading experts in the use of ancient DNA to discuss their recent findings related to both the optimization of methodology, and specific case studies pertaining to humans, plants, and animals.

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Location: Pacific D

Date: Sunday, January 9, 4:00 p.m.

Duration: 2 hours, 10 minutes

Plant and animal domestication genomics, with a focus on evolutionary history, the impacts of domestication on genome-wide variation, and the genomic basis of domestication traits.

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Product Sheets and Application Notes

Claim your special PAG gift!

Since we cannot personally hand you our great booth gift, you can claim it using promotion code DAB PAG 2022 at Daicel Arbor PAG gift.

myTagsmyTags Custom FISH Probes

myReadsmyReads NGS Services

myBaits myBaits Expert Wheat Exome Panel

myBaitsmyBaits Custom Panels

    ASHG 2020 is the largest human genetics meeting and exposition in the world. This year’s virtual meeting is expected to attract over 4,000 scientific attendees, plus 70 exhibiting companies, powering all areas of innovation the field from microscopes to data storage and analytics. The meeting provides a forum for the presentation and discussion of cutting-edge science in all areas of human genetics. Stop by Daicel Arbor Biosciences booth and connect with us!

CSHL – Genome Organization & Nuclear Function

Cold Spring Harbor, NY

This will now be a virtual meeting to accommodate attendees across the globe during the current COVID-19 outbreak.

DOE JGI User Meeting

Postponed until Fall 2020

Oakland, CA


Booth #308

San Diego, CA

Summary of Industry Workshops

Advances in Visualizing Genome Organization – from Haplotypes to Chromosomal Barcoding

James A. BirchlerUniversity of Missouri
Whole chromosome paints have previously been developed for each chromosome of maize that rely on thousands of unique oligonucleotide probes along the length of each chromosome. This set is genotype independent and will label the respective chromosome across all tested maize lines. With the availability of genomic sequences for both B73 and Mo17 inbred lines, the ability to generate probe collections specific to those genotypes is available. Toward this end, Presence/Absence Variation (PAV) and SNPs were used for predicted oligos from one inbred sequence that were absent in the other and vice versa for chromosome 10 from the respective inbreds. The developed oligopaints were effective at distinguishing the two homologues of 10 in a B73/Mo17 hybrid. These haplotype specific probe sets were used to visualize recombination events from progeny of a B73/Mo17 hybrid and in Recombinant Inbred Line populations that fix recombination events from the two parental lines. Ongoing studies are examining the behavior of homologues in meiosis.

Kai Wang – Fujian Agriculture and Forestry University

Sugarcane (Saccharum spp., Poaceae) is a leading crop for sugar production providing 80% of the worlds sugar. However, the genetic and genomic complexities of this crop such as its high polyploidy level and highly variable chromosome numbers have significantly hindered the studies in deciphering the genomic structure and evolution of sugarcane. Here, oligo-FISH technology was optimized and a suitable system for sugarcane was established. The creation of oligo-FISH remarkably improves our ability to conduct cytological research on sugarcane, and bring us deep insights into the genomic structure and evolution of sugarcane.

Takayoshi Ishii – Arid Land Research Center, Tottori university

Andreas Houben – Leibniz Institute of Plant Genetics and Crop Plant Research (IPK)

We developed a tool to visualize defined genomic sequences in fixed nuclei and chromosomes based on a two-part guide RNA with the recombinant Cas9 endonucleasecomplex. In contrast to classical in situhybridization, RGEN-ISL (RNA-guided endonuclease – in situ labelling) does not require DNA denaturation and therefore permits a better structural chromatin preservation. The application of differentially labelled tracrRNAs allows the multiplexing of RGEN-ISL. We established a combination of RGEN-ISL, immuno-staining and EdU labelling to visualize in situ specific repeats, histone marks and DNA replication sites, respectively. The broad range of adaptability of RGEN-ISL to different temperatures and combinations of methods has the potential to advance the field of chromosome biology.

Complete Wheat Exome Analysis – From DNA to Variant Calling

Burkhard Steuernagel – The Sainsbury Laboratory and John Innes Centre

Disease resistance in plants is often conferred by members of a gene family that encode for intracellular receptors. These receptors have a nucleotide binding domain and leucine rich repeats (NLR). Resistance-gene Enrichment Sequencing (RenSeq) targets NLR genes and enables several cost-effective methods to identify such genes. We have designed RenSeq bait libraries for wheat and used them in combination with two complementary approaches. MutRenSeq deploys mutational genomics to target specific resistance genes. AgRenSeq is used for association genetics in a natural diversity panel. Both techniques have been used to identify several novel genes.

Shawn Quinn – Curio Genomics

As part of a collaboration with Daicel Arbor Biosciences the extensible Curio Genomics platform serves as the foundation that enables interpretive and real time analysis of NGS data generated from libraries that are enriched to focus on the high-confidence exon-annotated genome in hexaploid wheat.

In this talk we will demonstrate specific examples of how the platform scales to allow research partners to efficiently ask compound and complex bioinformatic questions of the massive genome of Chinese Spring Wheat samples. We’ll also show how the platform’s unique approach to the storage and processing of wheat genome data empowers researchers to conveniently collaborate with others, perform analyses, compare between samples, change analytical settings, apply different filters, and visualize results – all in real time.

Ute Baumann – The University of Adelaide

Posters Presentations from Daicel Arbor Biosciences & Collaborators

Multi-Cultivar Wheat Tetraploid and Hexaploid Exome Capture with a Single Enrichment Kit

Cannabis sativa Genotyping and Exon Sequencing Using a New Jamaican Lion-Derived Hybridization Capture Panel

SMRT-RenSeq for NLR Resistance Gene Characterization in Arachis, Glycine and Musa Species

Meiotic Crossovers Characterized by Haplotype- Specific Chromosome Painting in Maize

myTags® Synthetic FISH Probes Design Schemes for Plant and Animal Molecular Cytogenetics – Recombination, Translocation, Ploidy and Karyotyping Applications

Palaeochip: A Capture Enrichment Approach to Ancient Environmental DNA

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