Our group has been assembling genomes for many years, ranging from tiny (viruses and bacteria) to enormous (pine trees). We also develop genome assembly algorithms and software. This continues to be a very active area for the lab. Here we list some of the genomes that we’ve assembled along with the publications. All data has been (or will be) deposited in GenBank.
| Species | Common name | Genome size | Publication |
| Sequoia sempervirens | Coast redwood | 33 Gbp | TBA |
| Sequoia giganteum | Giant sequoia | 11 Gbp | TBA |
| Pinus taeda | Loblolly pine | 22 Gbp | Neale et al., Genome Biology 2014. |
| Pinus lambertiana | Sugar pine | 31 Gbp | Stevens et al., Genetics 2016 |
| Pseudotsuga mensiesii | Douglas fir | 18 Gbp | TBA |
| Aegilops tauschii | Goat grass | 22 Gbp | Zimin et al., Genome Research 2017 (to appear). |
| Triticum aestivum | Wheat | 15 Gbp | TBA |
| Quercus lobata | Valley oak | 750 Mbp | Sork et al., G3 2016 |
| Juglans regia | English walnut | 650 Mbp | Martinez-Garcia et al., The Plant Journal, 2016. |
| Juglans microcarpa | Texas walnut | 940 Mbp | TBA |
| Juglans cathayensis | Chinese walnut | 800 Mbp | TBA |
| Pterocarya stenoptera | Chinese wingnut | 950 Mbp | TBA |
| Juglans hindsii | Hind’s black walnut | 650 Mbp | TBA |
| Rhesus macaque | Macaque | 2.72 Gbp | Zimin et al., Biology Direct 2014 |
| Bombus impatiens | Common eastern bumble bee | 250 Mbp | Sadd et al., Genome Biology 2015 |
| Megachile rotundata | Alfalfa leafcutter bee | 275 Mbp | Kapheim et al., Science 2015 |
| Heliconius melpomene | Tropical butterfly | 269 Mbp | Heliconius Genome Consortium, Nature 2012 |
| Xanthomonas oryzae | Xanthomonas | 4.8 Mbp | Booher et al., Microbial Genomics 2015 |
| Meleagris gallopavo | Domestic turkey | 1.2 Gbp | Dalloul et al., PLoS Biology 2010 |
| Bos taurus | Domestic cow | 2.9 Gbp | Zimin et al., Genome Biology 2009 |
| Wolbachia endosymbiont of Culex mosquito | Wolbachia | 1.5 Mbp | Salzberg et al., J. Bacteriology 2009 |
| Francisella tularensis | Francisella | 1.9 Mbp | Puiu and Salzberg, PLoS ONE 2008 |
| Pseudomonas aeruginosa Pab1 | Pseudomonas | 6.3 Mbp | Salzberg et al., PLoS Comp. Biology 2008 |
| Xanthomonas oryzae PXO99A | Xanthomonas | 5.2 Mbp | Salzberg et al., BMC Genomics 2008 |
| Carica papaya | Papaya | 370 Mbp | Ming et al., Nature 2008 |
Virtually all of the projects listed here are collaborations with other labs; see the publications for a list of all the scientists involved on each one. Many older genomes are not listed here, including dozens of bacterial genomes sequenced when the lab was at TIGR (1997-2005) and the University of Maryland (2005-11), and hundreds of influenza virus genomes sequenced at TIGR for the Influenza Genome Sequencing Project, which our lab co-founded and which is still ongoing at NIAID.
