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Genome and cDNA Sequencing

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AGI Sequencing Group Leader:

Dr. Yeisoo Yu (yeisooyu@ag.arizona.edu)

Research Scientists for Next-Generation Sequencing:

Dr. Dario Copetti
Dr. Seunghee Lee
Mr. Jason Talag

AGI Physical Mapping Group Leader:

Dave Kudrna (dkudrna@email.arizona.edu)

Senior Research Specialist for Physical Mapping:

Dr. Jose Luis Goicoechea (jlgoicoe@ag.arizona.edu)

Sequencing at AGI: AGI recently acquired (2/14) a PacBio RSII sequencing instrument for targeted (BAC) and whole genome sequencing of large eukaryotic genomes (minimum tiling path BAC pools). The RSII can also be used for whole genome shotgun sequencing of microbial genomes as well as for full-length cDNA sequencing (“no assembly required”). If you are interested in using this technology for your genome project please contact Rod Wing, AGI Director, by email at rwing@mail.arizona.edu or Yeisoo Yu, AGI Sequencing Group Leader, at yeisooyu@ag.arizona.edu.

Additional sequencing services include: genomic library construction (up to 40kb mate pair libraries), RNAseq and smallRNA library, GBS library, sequencing, assembly (de novo whole genome; de novo and reference guided transcriptome), and automated annotation (MAKER software).

Physical Mapping at AGI: AGI’s Physical Mapping Group conducts analysis of BAC libraries by means of high throughput BAC DNA fingerprinting using the Whole Genome Profiling* method developed by KeyGene. The resulting fingerprints, which are sequence tags from each BAC clone, are assembled by the program FPC to create whole genome physical maps that can be used for positional cloning, targeted sequencing, and whole genome sequencing. Additionally, the sequenced based physical maps can be aligned to sequence scaffolds and used for assembly and locus analysis.

Our services include: BAC library construction, archiving, filter hybridization, WGP physical mapping, map assembly and editing (Physical Map, Whole Genome).

*Oeveren J.V. et al. Sequence-based physical mapping of complex genomes by whole genome profiling. Genome Research (2011) 21:618-625.
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A portion of AGI's material is based upon work supported by the National Science Foundation under Grant Number 102620.