Nitrogen transporters: comparative genomics, transport activity, and gene expression of NRTs and AMTs in Black Cottonwood (Populus trichocarpa)
| dc.contributor.author | Von Wittgenstein, Neil Joseph Jude Baron | |
| dc.contributor.supervisor | Hawkins, Barbara J. | |
| dc.contributor.supervisor | Ehlting, Jürgen | |
| dc.date.accessioned | 2013-04-18T22:49:12Z | |
| dc.date.available | 2013-04-18T22:49:12Z | |
| dc.date.copyright | 2013 | en_US |
| dc.date.issued | 2013-04-18 | |
| dc.degree.department | Dept. of Biology | en_US |
| dc.degree.level | Master of Science M.Sc. | en_US |
| dc.description.abstract | Black Cottonwood (Populus trichocarpa) is a fast-growing, economically important tree species. P. trichocarpa was the first tree to have its genome fully sequenced and is considered the model organism for genomic research in trees. Of the macronutrients in plants, Nitrogen (N) is required in the greatest amounts and is generally the limiting nutrient in terrestrial ecosystems. Inorganic N-transport is performed by four families of transporter proteins, AMT1 and AMT2 for ammonium (NH4+) and NRT1 and NRT2 for nitrate (NO3-). I have created phylogenetic reconstructions of each of these transporter families in 22 members of Viridiplantae whose genomes have been fully sequenced. Based on these phylogenies, I have introduced a new classification system for the transporter families that better represents the evolutionary and functional relatedness of the proteins. These phylogenies were supplemented with topology predictions, subcellular localization predictions, and in silico expression profiling in order to suggest functional characterization of the groups. This facilitated candidate gene selection for NH4+ and NO3- uptake transporters from P. trichocarpa. Expression profiling was performed on two of these candidates. Results suggest that PtAMT1-1 may be a high-affinity, root-localized NH4+ transporter. In contrast, PtNRT2-6 is a high-affinity NO3- transporter localized to the dormant bud, but its physiological functions remain largely enigmatic. Flux profiles of NH4+, NO3-, and H+ in the first 1.4 cm of root tips of three-week-old P. trichocarpa seedlings and cuttings were measured using the Microelectrode Ion Flux mEasurement (MIFE) system to demonstrate the activity of AMTs and NRTs under nutrient-abundant and nutrient-deficient conditions. I found mainly N-efflux from roots of cuttings while seedling roots exhibited N-uptake. This is the first report of such a difference. This highlights an unexpected but clear physiological difference between seedling and cutting roots, which are frequently used in experimental setups. | en_US |
| dc.description.proquestcode | 0817 | en_US |
| dc.description.proquestcode | 0369 | en_US |
| dc.description.proquestcode | 0715 | en_US |
| dc.description.proquestemail | neilvonw@gmail.com | en_US |
| dc.description.scholarlevel | Graduate | en_US |
| dc.identifier.uri | http://hdl.handle.net/1828/4533 | |
| dc.language.iso | en | en_US |
| dc.rights.temp | Available to the World Wide Web | en_US |
| dc.subject | Poplar | en_US |
| dc.subject | Phylogeny | en_US |
| dc.subject | Comparative genomics | en_US |
| dc.subject | Populus trichocarpa | en_US |
| dc.subject | Black Cottonwood | en_US |
| dc.subject | NRT | en_US |
| dc.subject | AMT | en_US |
| dc.subject | Nitrate transporter | en_US |
| dc.subject | Ammonium transporter | en_US |
| dc.subject | Ion Flux | en_US |
| dc.subject | Nitrate uptake | en_US |
| dc.subject | Ammonium uptake | en_US |
| dc.title | Nitrogen transporters: comparative genomics, transport activity, and gene expression of NRTs and AMTs in Black Cottonwood (Populus trichocarpa) | en_US |
| dc.type | Thesis | en_US |