Conifer Translational Genomics Network - Coordinated Agricultural Project (CTGN - CAP)

Publications

Published

Journal Publications

  • Chhatre VE, Byram TD, Neale DB, Wegrzyn JL, and Krutovsky KV. 2013. Genetic structure and association mapping of adaptive and selective traits in the E. Texas loblolly pine (Pinus taeda L.) breeding populations. Tree Genetics and Genomes Online. DOI 10.1007/s11295-013-0624-x.

  • Lorenz WW, Ayyampalayam S, Bordeaux JM, Howe GT, Jermstad KD, Neale DB, Rogers DL, and Dean JFD. 2012. Conifer DBMagic: A database housing multiple de novo transcriptome assemblies for 12 diverse conifer species. Tree Genetics and Genomes 8:1477-1485.

  • Munoz Del Valle PR, Huber DA, Martin TA. 2012. Relative contributions of crown and phenological traits to growth of a pseudo-backcross pine family ((slash x loblolly) x slash) and its pure species progenitors. Tree Genetics and Genomes 8:1281-1292.

  • Zapata-Valenzuela JA, Isik FT, Maltecca C, Wegryzn JL, Neale DB, McKeand SE, Whetten RW. 2012. SNP markers trace familial linkages in a cloned population of Pinus taeda-prospects for genomic selection. Tree Genetics and Genomes 8:1307-1318.

  • Neale D. 2011. Genomics-based breeding in forest trees: Are we there yet? BMC Proceedings 5(Suppl 7):14.

  • Munoz Del Valle PR, Huber DA, Butnor JR. 2011. Phenotypic analysis of first-year traits in a pseudo-backcross {(slash x loblolly) x slash} and the open-pollinated families of the pure-species progenitors. Tree Genetics and Genomes 7:183-192.

Online Learning Modules

  • Wheeler N, Harry D. 2012. Introduction [Online Module 1]. Genomics in Tree Breeding and Forest Ecosystem Management, Conifer Translational Genomics Network. eXtension Foundation. [Link]

  • Wheeler N, Harry D. 2012. Genes, genomes, and Mendel [Online Module 2]. Genomics in Tree Breeding and Forest Ecosystem Management, Conifer Translational Genomics Network. eXtension Foundation. [Link]

  • Wheeler N, Harry D. 2012. Population genetics [Online Module 3]. Genomics in Tree Breeding and Forest Ecosystem Management, Conifer Translational Genomics Network. eXtension Foundation. [Link]

  • Wheeler N, Harry D. 2012. Quantitative genetics [Online Module 4]. Genomics in Tree Breeding and Forest Ecosystem Management, Conifer Translational Genomics Network. eXtension Foundation. [Link]

  • Wheeler N, Harry D. 2012. Introduction to tree breeding and provenance trials [Online Module 5]. Genomics in Tree Breeding and Forest Ecosystem Management, Conifer Translational Genomics Network. eXtension Foundation. [Link]

  • Wheeler N, Wegrzyn J, Harry D. 2012. Genetic markers [Online Module 6]. Genomics in Tree Breeding and Forest Ecosystem Management, Conifer Translational Genomics Network. eXtension Foundation. [Link]

  • Wheeler N, Harry D. 2012. Measuring, organizing, and interpreting marker variation [Online Module 7]. Genomics in Tree Breeding and Forest Ecosystem Management, Conifer Translational Genomics Network. eXtension Foundation. [Link]

  • Wheeler N, Harry D. 2012. Genetic mapping [Online Module 8]. Genomics in Tree Breeding and Forest Ecosystem Management, Conifer Translational Genomics Network. eXtension Foundation. [Link]

  • Wheeler N, Harry D. 2012. Mapping quantitative trait loci (QTL) [Online Module 9]. Genomics in Tree Breeding and Forest Ecosystem Management, Conifer Translational Genomics Network. eXtension Foundation. [Link]

  • Wheeler N, Harry D. 2012. Linkage disequilibrium [Online Module 10]. Genomics in Tree Breeding and Forest Ecosystem Management, Conifer Translational Genomics Network. eXtension Foundation. [Link]

  • Wheeler N, Harry D. 2012. Association genetics [Online Module 11]. Genomics in Tree Breeding and Forest Ecosystem Management, Conifer Translational Genomics Network. eXtension Foundation. [Link]

  • Wheeler N. 2012. Marker informed breeding - program management [Online Module 12]. Genomics in Tree Breeding and Forest Ecosystem Management, Conifer Translational Genomics Network. eXtension Foundation. Available at [Link]

  • Wheeler N. 2012. Association discovery and evaluation [Online Module 13]. Genomics in Tree Breeding and Forest Ecosystem Management, Conifer Translational Genomics Network. eXtension Foundation. [Link]

  • Isik F. 2012. Using markers to predict breeding values [Online Module 14]. Genomics in Tree Breeding and Forest Ecosystem Management, Conifer Translational Genomics Network. eXtension Foundation. [Link]

  • Whetten R. 2012. Genomic selection [Online Module 15]. Genomics in Tree Breeding and Forest Ecosystem Management, Conifer Translational Genomics Network. eXtension Foundation. [Link]

In Preparation

  • Howe GT, et al. A SNP resource for Douglas-fir: De novo transcriptome assembly and SNP detection and verification. To be submitted to BMC Genomics

  • [Dudley Huber] Quantitative trait loci analysis for growth, efficiency and morphological traits in a pseudo-backcross (slash x loblolly) x slash

  • [Dudley Huber] Quantitative trait loci analysis for growth and wood properties in slash pine families. Waiting for genotype data

  • Ogut F, Isik FT, Maltecca C, McKeand SE, Whetten RW. Use of simulations to explore analytical methods for SNP datasets in tree breeding.

  • Zapata-Valenzuela JA, Isik FT, Maltecca C, Wegryzn JL, Neale DB, McKeand SE, Whetten RW. Applications of genomic relationship matrices to BLUP analysis of progeny test data.

  • Cumbie WP, Isik FT, Wegrzyn JL, Eckert AJ, Neale DB, McKeand SE, Goldfarb B, Whetten RW. Association genetics and marker effects for volume and stem form in loblolly pine (Pinus taeda L.)

  • Xiong J, Isik FT, Wegrzyn JL, Neale DB, McKeand SE, Whetten RW. Quantitative trait loci influencing forking defects in loblolly pine (Pinus taeda L.).

Posters

Realized Genomic Relationshp and Genomic Selection in Loblolly Pine. IUFRO 2011. Jaime Zapata-Valenzuela, Fikret Isik, Christian Maltecca, Jill Wegrzyn, David Neale, Steve McKeand, Ross Whetten. [Link]

TreeGenes: A Forest Tree Genome Database, Plant and Animal Genome XVII , 2009. Jill L Wegrzyn, Ben N Figueroa, Alex Q Voong, Elly Y Chen, David B Neale. [Link]

Conifer Translational Genomics Network. Presented at Annual Retreat, Center for Genomic Research & Biocomputing, OSU. September 27, 2007. Dave Harry and Glenn Howe. [Link]