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Adapterama is a general approach to making libraries that allows pooling of many libraries together in a single sequencing Run or lane.
Adapterama is a general approach to making libraries that allows pooling of many libraries together in a single sequencing Run or lane.
We began developing Adapterama methods in 2007, when 454 was first becoming available. We did a bunch of stuff (such as SimpleX ligations for UCE captures on birds in the fall of 2009). Some of it worked.
We began developing Adapterama methods in 2007, when 454 was first becoming available. We did a bunch of stuff (such as SimpleX ligations for UCE captures on birds in the fall of 2009). Some of it worked.
We have been developing and using Adapterama methods for Illumina sequencing since July, 2010. We started by designing primers that worked with Nextera (before Illumina bought EpiCentre). Our primers had custom indexes, so that we could pool more samples in the lane of an Illumina GAIIx (i.e., before HiSeqs became accessible) than Illumina, or anyone else, was supporting. That worked.
We have been developing and using Adapterama methods for Illumina sequencing since July, 2010. We started by designing primers that worked with Nextera (before Illumina bought EpiCentre). Our primers had custom indexes, so that we could pool more samples in the lane of an Illumina GAIIx (i.e., before HiSeqs became accessible) than Illumina, or anyone else, was supporting. That worked.
We initially developed the iNext set of adapters, because Nextera did not require fragmenting the DNA, Nextera required the lowest amoungof input DNA, and thus, we envisioned using Nextera for a long time. Then, we did a big project using Nextera XT. Some of it worked.
We initially developed the iNext set of adapters, because Nextera did not require fragmenting the DNA, Nextera required the lowest amoungof input DNA, and thus, we envisioned using Nextera for a long time. Then, we did a big project using Nextera XT. Some of it worked.
Illumina TruSeq began dominating the market, and we wanted to be able to combine our custom libraries with TruSeq libraries. KapaBiosciences came out with their kits, sans adapters and primers. So, we developed iTru. We did a bunch of stuff. Most of it worked.
Illumina TruSeq began dominating the market, and we wanted to be able to combine our custom libraries with TruSeq libraries. KapaBiosciences came out with their kits, sans adapters and primers. So, we developed iTru. We did a bunch of stuff. Most of it worked.
Please see the other Adapterama pages for details of our current systems. We have done a bunch of stuff. It works.
Please see the other Adapterama pages for details of our current systems. We have done a bunch of stuff. It works.
AdapteraMA Publications
AdapteraMA Publications
1. Glenn, T. C., R. Nilsen, T. J. Kieran, J. G. Sanders, N. J. Bayona-Vasquez, J. W. Finger Jr., T. W. Pierson, K. E. Bentley, S. L. Hoffberg, S. Louha, F. J. García-De León, M. A. D. R. Portilla, K. D. Reed, J. L. Anderson, J. K. Meece, S. E. Aggrey, R. Rekaya, M. Alabady, M. Bélanger, K. Winker, and B. C. Faircloth. 2019. Adapterama I: Universal stubs and primers for 384 unique dual-indexed or 147,456 combinatorially-indexed Illumina libraries (iTru & iNext). PeerJ 7:e7755. http://doi.org/10.7717/peerj.7755 PMID: 31616586; cited preprint available at: https://doi.org/10.1101/049114
1. Glenn, T. C., R. Nilsen, T. J. Kieran, J. G. Sanders, N. J. Bayona-Vasquez, J. W. Finger Jr., T. W. Pierson, K. E. Bentley, S. L. Hoffberg, S. Louha, F. J. García-De León, M. A. D. R. Portilla, K. D. Reed, J. L. Anderson, J. K. Meece, S. E. Aggrey, R. Rekaya, M. Alabady, M. Bélanger, K. Winker, and B. C. Faircloth. 2019. Adapterama I: Universal stubs and primers for 384 unique dual-indexed or 147,456 combinatorially-indexed Illumina libraries (iTru & iNext). PeerJ 7:e7755. http://doi.org/10.7717/peerj.7755 PMID: 31616586; cited preprint available at: https://doi.org/10.1101/049114
2. Glenn, T. C., T. W. Pierson, N. J. Bayona-Vásquez, T. J. Kieran, S. L. Hoffberg, J. C. Thomas IV, D. E. Lefever, J. W. Finger Jr., B. Gao, X. Bian, S. Louha, R. T. Kolli, K. Bentley, J. Rushmore, K. Wong, T. I. Shaw, M. J. Rothrock Jr., A. M. McKee, T. L. Guo, R. Mauricio, M. Molina, B. S. Cummings, L. H. Lash, K. Lu, G. S. Gilbert, S. P. Hubbell, and B. C. Faircloth. 2019. Adapterama II: Universal amplicon sequencing on Illumina platforms (TaggiMatrix). PeerJ 7:e7786. http://doi.org/10.7717/peerj.7786 PMID: 31616589; cited preprint available at: https://doi.org/10.1101/619544
2. Glenn, T. C., T. W. Pierson, N. J. Bayona-Vásquez, T. J. Kieran, S. L. Hoffberg, J. C. Thomas IV, D. E. Lefever, J. W. Finger Jr., B. Gao, X. Bian, S. Louha, R. T. Kolli, K. Bentley, J. Rushmore, K. Wong, T. I. Shaw, M. J. Rothrock Jr., A. M. McKee, T. L. Guo, R. Mauricio, M. Molina, B. S. Cummings, L. H. Lash, K. Lu, G. S. Gilbert, S. P. Hubbell, and B. C. Faircloth. 2019. Adapterama II: Universal amplicon sequencing on Illumina platforms (TaggiMatrix). PeerJ 7:e7786. http://doi.org/10.7717/peerj.7786 PMID: 31616589; cited preprint available at: https://doi.org/10.1101/619544
3. Bayona- Vásquez*, N. J., T. C. Glenn*, T. J. Kieran, T. W. Pierson, S. L. Hoffberg, P. A. Scott, K. E. Bentley, J. W. Finger, S. Louha, N. Troendle, P. Diaz-Jaimes, R. Mauricio, B. C. Faircloth. 2019. Adapterama III: Quadruple-indexed, double/triple-enzyme RADseq libraries (2RAD/3RAD). PeerJ 7:e7724. http://doi.org/10.7717/peerj.7724 PMID: 31616583; cited preprint available at: https://doi.org/10.1101/205799 *equal co-authorship
3. Bayona- Vásquez*, N. J., T. C. Glenn*, T. J. Kieran, T. W. Pierson, S. L. Hoffberg, P. A. Scott, K. E. Bentley, J. W. Finger, S. Louha, N. Troendle, P. Diaz-Jaimes, R. Mauricio, B. C. Faircloth. 2019. Adapterama III: Quadruple-indexed, double/triple-enzyme RADseq libraries (2RAD/3RAD). PeerJ 7:e7724. http://doi.org/10.7717/peerj.7724 PMID: 31616583; cited preprint available at: https://doi.org/10.1101/205799 *equal co-authorship
4. Hoffberg, S. L., T. J. Kieran, J. M. Catchen, A. Devault, B. C. Faircloth, R. Mauricio, T. C. Glenn. 2016. RADcap: Sequence capture of dual-digest RADseq libraries with identifiable duplicates and reduced missing data. Molecular Ecology Resources 16(5):1264-1278. doi: 10.1111/1755-0998.12566, PMID:27416967, original preprint: https://www.biorxiv.org/content/early/2016/04/20/044651 [Preprint names this as Adapterama IV, because, even though it was published years before the others, it was created as the 4th manuscript in this series.]
4. Hoffberg, S. L., T. J. Kieran, J. M. Catchen, A. Devault, B. C. Faircloth, R. Mauricio, T. C. Glenn. 2016. RADcap: Sequence capture of dual-digest RADseq libraries with identifiable duplicates and reduced missing data. Molecular Ecology Resources 16(5):1264-1278. doi: 10.1111/1755-0998.12566, PMID:27416967, original preprint: https://www.biorxiv.org/content/early/2016/04/20/044651 [Preprint names this as Adapterama IV, because, even though it was published years before the others, it was created as the 4th manuscript in this series.]
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