2017

Crepeau Marc W, Charles H Langley, Kristian A Stevens. (2017). From Pine Cones to Read Clouds: Rescaffolding the Megagenome of Sugar Pine (Pinus lambertiana). G3: Genes, Genomes, Genetics7(5), 1563-1568. Full Text.

Cronn Richard, Peter C Dolan, Sanjuro Jogdeo, Jill L Wegrzyn, David B Neale, J Bradley St Clair, Dee R Denver. (2017). Transcription through the eye of a needle: daily and annual cyclic gene expression variation in Douglas-fir needles. BMC genomics18(1), 558. Full Text.

Neale David B, Pedro J Martínez-García, Amanda R De La Torre, Sara Montanari, Xiao-Xin Wei. (2017). Novel insights into tree biology and genome evolution as revealed through genomics. Annual review of plant biology68, 457-483. Full Text.

Neale David B, Patrick E McGuire, Nicholas C Wheeler, Kristian A Stevens, Marc W Crepeau, Charis Cardeno, Aleksey V Zimin, Daniela Puiu, Geo M Pertea, U Uzay Sezen, Claudio Casola, Tomasz E Koralewski, Robin Paul, Daniel Gonzalez-Ibeas, Sumaira Zaman, Richard Cronn, Mark Yandell, Carson Holt, Charles H Langley, James A Yorke, Steven L Salzberg, Jill L Wegrzyn. (2017). The Douglas-fir genome sequence reveals specialization of the photosynthetic apparatus in PinaceaeG3: Genes, Genomes, Genetics7(9), 3157-3167. Full Text.

Zimin Aleksey V, Kristian A Stevens, Marc W Crepeau, Daniela Puiu, Jill L Wegrzyn, James A Yorke, Charles H Langley, David B Neale, Steven L Salzberg. (2017). An improved assembly of the loblolly pine mega-genome using long-read single-molecule sequencing. Gigascience6(1), 1-4. Full Text.

2016

Gonzalez-Ibeas Daniel, Pedro J Martínez-García, Randi A Famula, Annette Delfino-Mix, Kristian A Stevens, Carol A Loopstra, Charles H Langley, David B Neale, Jill L Wegrzyn. (2016). Assessing the gene content of the megagenome: sugar pine (Pinus lambertiana). G3: Genes, Genomes, Genetics6(12), 3787-3802. Full Text.

Stevens Kristian A, Jill Wegrzyn, Aleksey Zimin, Daniela Puiu, Marc Crepeau, Charis Cardeno, Robin Paul, Daniel Gonzalez-Ibeaz, Maxim Koriabine, Ann E Holtz-Morris, Pedro J Martínez-García, Uzay U Sezen, Guillaume Marçais, Kathy Jermstad, Patrick E McGuire, Carol A Loopstra, John M Davis, Andrew Eckert, Pieter deJong, James A Yorke, Steven L Salzberg, David B Neale, Charles H Langley. (2016). Sequence of the sugar pine megagenome. Genetics, 204(4), 1613-1626. Full Text.

2015

Marçais Guillaume, James A Yorke, Aleksey V Zimin. (2015). QuorUM: an error corrector for Illumina reads. PLoS One10(6), e0130821. Full Text.

Westbrook Jared W, Vikram E Chhatre, Le-Shin Wu, Srikar Chamala, Leandro Gomide Neves, Pedro J Martínez-García, David B Neale, Matias Kirst, Keithanne Mockaitis, C Dana Nelson, Gary F Peter, John M Davis, Craig S Echt. 2015. A consensus genetic map for Pinus taeda L. and P. elliotii and extent of linkage disequilibrium in two genotype-phenotype discovery populations of P. taeda. G3: Genes|Genomes|Genetics 5(6):1-42. doi.org/10.1534/g3.115.019588 Full Text.

Wheeler Nicholas C, Kim C Steiner, Scott E Schlarbaum, David B Neale. (2015). The evolution of forest genetics and tree improvement research in the United States. Journal of Forestry113(5), 500-510. Full Text.

2014

Neale David B, Jill L Wegrzyn, Kristian A Stevens, Aleksey V Zimin, Daniela Puiu, Marc W Crepeau, Charis Cardeno, Maxim Koriabine, Ann E Holtz-Morris, John D Liechty, Pedro J Martínez-García, Hans A Vasquez-Gross, Brian Y Lin, Jacob J Zieve, William M Dougherty, Sara Fuentes-Soriano, Le-Shin Wu, Don Gilbert, Guillaume Marçais, Michael Roberts, Carson Holt, Mark Yandell, John M Davis, Katherine E Smith, Jeffrey FD Dean, W Walter Lorenz, Ross W Whetten, Ronald Sederoff, Nicholas Wheeler, Patrick E McGuire, Doreen Main, Carol A Loopstra, Keithanne Mockaitis, Pieter J deJong, James A Yorke, Steven L Salzberg, Charles H Langley. (2014). Decoding the massive genome of loblolly pine using haploid DNA and novel assembly strategies. Genome biology15(3), R59. Full Text.

Wegrzyn Jill L, John D Liechty, Kristian A Stevens, Le-Shin Wu, Carol A Loopstra, Hans Vasquez-Gross, William M Dougherty, Brian Y Lin, Jacob J Zieve, Pedro J Martínez-García, Carson Holt, Mark Yandell, Aleksey Zimin, James A Yorke, Marc Crepeau, Daniela Puiu, Steven L Salzberg, Pieter de Jong, Keithanne Mockaitis, Doreen Main, Charles H Langley, David B Neale. (2014). Unique features of the loblolly pine (Pinus taeda L.) megagenome revealed through sequence annotation. Genetics196(3), 891-909. Full Text.

Zimin Aleksey, Kristian A Stevens, Marc Crepeau, Ann Holtz-Morris, Maxim Koriabine, Guillaume Marçais, Daniela Puiu, Michael Roberts, Jill L Wegrzyn, Pieter J de Jong, David B Neale, Steven L Salzberg, James A Yorke, and Charles H Langley. (2014). Sequencing and assembly of the 22-Gb loblolly pine genome. Genetics196(3), 875-890. Full Text.

2013

Neale David B, Charles H Langley, Steven L Salzberg, Jill L Wegrzyn. (2013). Open access to tree genomes: the path to a better forest. Genome biology14(6), 120. Full Text.

Martínez-García, P. J., Stevens, K. A., Wegrzyn, J. L., Liechty, J., Crepeau, M., Langley, C. H., & Neale, D. B. (2013). Combination of multipoint maximum likelihood (MML) and regression mapping algorithms to construct a high-density genetic linkage map for loblolly pine (Pinus taeda L.). Tree genetics & genomes9(6), 1529-1535. Full Text.

Wegrzyn Jill L, Brian Y Lin, Jacob J Zieve, William M Dougherty, Pedro J Martínez-García, Maxim Koriabine, Ann Holtz-Morris, Pieter de Jong, Marc Crepeau, Charles H Langley, Daniela Puiu, Steven L Salzberg, David B Neale, Kristian A Stevens. (2013). Insights into the loblolly pine genome: characterization of BAC and fosmid sequences. PLoS One8(9), e72439. Full Text.