Home > Papers

 
 
2,878 horizontally transferred genes in rice genome revealed by BLAST homology and phylogenetic tree
Xingyi Guo 1 *,Yu Wang 2 #
1.Institute of Bioinformatics, Zhejiang University
2.Department of Agronomy, Zhejiang University
*Correspondence author
#Submitted by
Subject: Evolutionary Genetics
Funding: 教育部博士点基金(No.20060335115)
Opened online:12 January 2010
Accepted by: none
Citation: Xingyi Guo,Yu Wang.2,878 horizontally transferred genes in rice genome revealed by BLAST homology and phylogenetic tree[OL]. [12 January 2010] http://www.paper.edu.cn/lwzx/en_releasepaper/content/38803
 
 
Horizontal gene transfer (HGT) is considered to have an important role to explore new niche, which has been widely described between different species of prokaryotes. The least well-documented form of large-scale HGT deals with the uptake of DNA from prokaryotes into higher eukaryotes. However, the number of genes introgress into rice genome through HGT is still not investigated. Based on large-scale sequences comparisons and phylogenetic analyses, 2, 878, or 6.7% of total 42, 653 genes were isolated from rice genome. More than 55.7% of the transferred genes were identified as duplication genes based sequence similarity. Of the 2,878 genes, total 1515 genes can be divided into 587 neighbour gene groups (2 to 8 members per group) based on their physical positions, which forms 52.6% of the total transferred genes. Meanwhile, many of the groups can be found their syntenic regions in prokaryotes. Among the HGT genes, genes involved in cellular process and metabolism are over-representation, For example, hydrolase, an important enzymes involved in the degradation of carbohydrates from the plant cell wall. There are more HGT genes involved in response to stress and stimulus of biotic and endogenous than non-HGT genes. A high proportion (6.7%) of horizontal transferred genes was observed in rice genome. The rate is the highest one reported for eukaryotes up to now. Many short syntenic regions of HGT genes between rice and prokaryotes suggest that segmental insertion might be a transfer mechanism for HGT in rice. Gene duplication plays an important role in expanding of the horizontally transferred genes in new territory. HGT genes seem tend to target adaptation to an advantage environment.
Keywords:Horizontal gene transfer;gene duplication;rice;prokaryote
 
 
1  
该文通过同源性分析及系统树构建途径,检测出两千多个可能从原核生物水平转移到水稻基因组中的基因。所得结果有助于进一步研究基因在物种间水平转移这一重要问题。可考虑在以下方面改进:(1)现已有上千种原核生物的基因组被测定全序列,而论文的研究只选了27种,是否有足够的代表性?(2)另最好能分析与水稻相近植物的基因组(目前可能没有已测定全序列的,因此只能分析已有部分序列的植物)的情况,这样结果会更可靠;(3)英文的写作还需修改。

For this paper

  • PDF (692KB)
  • ● Revision 0   
  • ● Print this paper
  • ● Recommend this paper to a friend
  • ● Add to my favorite list

    Saved Papers

    Please enter a name for this paper to be shown in your personalized Saved Papers list

Tags

Add yours

Related Papers

Statistics

PDF Downloaded 51240
Bookmarked 0
Recommend 8
Comments 0
Submit your papers