Page 6 - Genomics and Applied Biology

Genomics and Applied Biology, 2011, Vol.2 No.1

http://gab.sophiapublisher.com

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Table 1 Sequences homology alignments of nucleotide sequence by NCBI BlAST

Accession No.

Description

Max score

Total score

Similarity (%)

AK251405.1

Hordeum vulgare

subsp. vulgare cDNA clone:

FLbaf108f14, mRNA sequence

1 285

86

AB063117.1

Hordeum vulgare

HvAPX1 mRNA for peroxisome

type ascorbate peroxidase, complete cds

1 285

89

EF555121.1

Triticum aestivum

peroxisomal ascorbate peroxidase

(APX) mRNA, complete cds

1 279

86

NM_001068974.1

Oryza sativa

(japonica cultivar-group) Os08g0549100

(Os08g0549100) mRNA, complete cds

1 137

91

CT841589.1

Oryza rufipogon

(W1943) cDNA clone:

ORW1943C103I13, full insert sequence

1 131

91

CT832438.1

Oryza sativa

(indica cultivar-group) cDNA clone:

OSIGCSN015H07, full insert sequence

1 131

91

CT832436.1

Oryza sativa

(indica cultivar-group) cDNA clone:

OSIGCRA102O15, full insert sequence

1 131

91

AK104490.1

Oryza sativa

Japonica Group cDNA clone:

006-302-B09, full insert sequence

1 131

91

AK070842.1

Oryza sativa

Japonica Group cDNA clone:

J023074O14, full insert sequence

1 131

91

CU405801.1

Oryza rufipogon

(W1943) cDNA clone:

ORW1943C004J17, full insert sequence

1 126

91

EU976229.1

Zea mays

clone 688596 APx4-Peroxisomal

Ascorbate Peroxidase mRNA, complete cds

957

88

1.2.2 Homology comparison and phylogenetic tree

of the presumed amino acids

Comparing the

PutA Px

genes from Puccinellia

tenuiflora with the

APX

gene of Arabidopsis

NP195226, Rice AK070842, Barley BAB6253, Wheat

EF555121, Ryegrass EF495352, Corn BT016732 by

DNAStar software, we found that they had high

similarities, which were 70.7%, 89.7%, 94.3%, 94.2%,

73.7%, 79.6% at amino acid level, respectively (Figure 4).

The phylogenetic tree displayed higher homology of

PutA Px with the gramineae plants barley, wheat and

rice on amino acid level (Figure 5). The high

similarities between

PutA Px

and five other species

demonstrated that the

APX

genes of gramineae are

highly conserved. All these results indicated that

PutA

Px

encoded protein had ascorbate peroxidase activities.

1.2.3 Prediction of

PutA Px

subcellular localization

and analysis of PutA Px transmembrane structure

1.2.3.1 Prediction of

PutAPx

subcellular localization

Using PSORT, subcellular localization was analyzed

based on the amino acid sequence of

PutA Px

, the

results indicated that the possibility of

PutA Px

was

localization in cytoplasm (0.70) and peroxisome

(0.671) was extremely large (Table 2).

Table 2 Analysis of subcellular location

Location

Score

Location

Score

Nucleus

0.000

Endoplasmic reticulum 0.000

Cytoplasm

0.671

Peroxisome

0.700

Plasma membrane 0.000

Chloroplast thylakoid 0.432

Mitochondrion

0.218