Poplar Genomics: State of the Science

Journal Article · Thu Jan 01 04:00:00 EST 2009 · Critical Reviews in Plant Science

DOI:https://doi.org/10.1080/07352680903241014· OSTI ID:979203

Yang, Xiaohan ^[1]; Kalluri, Udaya C ^[1]; DiFazio, Stephen P ^[1]; Wullschleger, Stan D ^[1]; Tschaplinski, Timothy J ^[1]; Tuskan, Gerald A ^[1]

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1. ORNL

Populus has become a model for genomics research in woody perennial plants due to the release of its genome sequence and the important roles it has been playing in research areas related to alternative energy and climate change. Over the past five years, enormous advances have been made in both experimental and computational genomics in Populus. In the area of Populus experimental genomics, traditional genetic approaches have been advanced to the genome scale with resolution to the gene and/or single nucleotide level on the one hand, and on the other hand, the modern omics approaches have been successfully applied to analyses of gene functions, including transcriptome profiling using microarrays as well as the next-generation DNA sequencing technology, proteome analysis using matrix assisted laser desorption ionization timeof-flight mass spectrometry, and metabolome characterization using gas chromatography/timeof-flight mass spectrometry. In the area of Populus computational genomics, significant progress has been made in sequence-based discovery of predicted gene function, comparative analysis of gene families, development of online genomic databases, and studies of the evolutionary dynamics at both the gene and genome level. While exciting achievements have been obtained in Populus genomics, several challenges need to be addressed in the future: 1) better annotation of the Populus genome; 2) robust technology for large-scale gene expression analysis; 3) an efficient system for genome-wide mutagenesis; and 4) high performance computational pipelines to keep up with the pace of the rapid accumulation of data and to integrate omics data into functional systems biology platforms.

• Research Organization: Oak Ridge National Laboratory (ORNL)
• Sponsoring Organization: SC USDOE - Office of Science (SC)
• DOE Contract Number: AC05-00OR22725
• OSTI ID: 979203
• Journal Information: Critical Reviews in Plant Science, Journal Name: Critical Reviews in Plant Science Journal Issue: 5 Vol. 28
• Country of Publication: United States
• Language: English

Related Subjects

54 ENVIRONMENTAL SCIENCES
60 APPLIED LIFE SCIENCES
BIOLOGY
CLIMATES
DESORPTION
DNA SEQUENCING
FUNCTIONALS
GENES
GENETICS
IONIZATION
LASERS
MASS SPECTROSCOPY
MUTAGENESIS
NUCLEOTIDES
PERFORMANCE
PIPELINES
POPLARS
RESOLUTION