Genome-wide identification of lineage-specific genes in Arabidopsis, Oryza and Populus.

Abstract:

:Protein sequences were compared among Arabidopsis, Oryza and Populus to identify differential gene (DG) sets that are in one but not the other two genomes. The DG sets were screened against a plant transcript database, the NR protein database and six newly-sequenced genomes (Carica, Glycine, Medicago, Sorghum, Vitis and Zea) to identify a set of species-specific genes (SS). Gene expression, protein motif and intron number were examined. 165, 638 and 109 SS genes were identified in Arabidopsis, Oryza and Populus, respectively. Some SS genes were preferentially expressed in flowers, roots, xylem and cambium or up-regulated by stress. Six conserved motifs in Arabidopsis and OryzaSS proteins were found in other distant lineages. The SS gene sets were enriched with intronless genes. The results reflect functional and/or anatomical differences between monocots and eudicots or between herbaceous and woody plants. The Populus-specific genes are candidates for carbon sequestration and biofuel research.

journal_name

Genomics

journal_title

Genomics

authors

Yang X,Jawdy S,Tschaplinski TJ,Tuskan GA

doi

10.1016/j.ygeno.2009.01.002

subject

Has Abstract

pub_date

2009-05-01 00:00:00

pages

473-80

issue

5

eissn

0888-7543

issn

1089-8646

pii

S0888-7543(09)00008-1

journal_volume

93

pub_type

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