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Molecular Plant Breeding 2011, Vol.2, No.16, 109
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Table 1 Gene structural analysis of cloned 11
SCA
s from three species of lily and their accession numbers
Regions of exons
Name of cloned
sequences
Total length of
framents(bp)
Exon1
Exon2
Length of
intron (bp)
Length of ORF
(bp)
GenBank
accession No.
LaSCA1
629
28~359
488~497
128
342
JQ009444
LaSCA2
600
28~365
438~447
72
348
JQ009445
LaSCA3
577
28~359
488~497
128
342
JQ009446
LaSCA4
577
28~359
488~497
128
342
JQ009447
LlSCA1
619
28~359
462~471
102
342
JN676989
LlSCA2
619
28~359
462~471
102
342
JN603662
LlSCA3
647
28~362
490~499
127
345
JN676990
LoSCA1
670
28~332
515~524
155
342
JQ009440
LoSCA2
673
28~359
514~523
154
342
JQ009441
LoSCA3
647
28~359
491~500
131
342
JQ009442
LoSCA4
636
28~362
479~488
116
345
JQ009443
Table 2 Identities of the nucleotide sequences and the deduced amino acid sequences of 11 cloned SCA from three species of lily
Identity
LaSCA
1
LaSCA
2
LaSCA
3
LaSCA
4
LlSCA
1
LlSCA
2
LlSCA
3
LoSCA
1
LoSCA
2
LoSCA
3
LoSCA
4
LaSCA1 100
94.51
98.90
96.70
96.70
97.80
94.51
91.21
92.31
95.60
93.41
LaSCA2 81.43
100
94.51
94.51
93.41
94.51
92.31
90.11
89.01
92.31
90.11
LaSCA3 89.51
76.54
100
97.80
95.60
96.70
94.51
90.11
91.21
94.51
92.31
LaSCA4 87.92
77.20
98.09
100
95.60
96.70
96.70
90.11
91.21
94.51
92.31
LlSCA1 84.06
85.56
77.26
77.10
100
98.90
93.41
92.31
93.41
96.70
94.51
LlSCA2 84.21
85.71
77.42
77.26
99.68
100
94.51
93.41
94.51
97.80
95.60
LlSCA3 85.41
82.60
76.65
77.11
93.66
93.97
100
87.91
89.01
92.31
92.31
LoSCA1 85.69
79.21
73.28
73.88
83.93
84.23
84.66
100
92.31
95.60
92.31
LoSCA2 85.46
78.48
72.97
73.12
83.51
83.80
85.52
92.17
100
96.70
95.60
LoSCA3 89.38
81.79
81.20
81.36
84.72
85.03
86.35
91.37
89.50
100
96.70
LoSCA4 88.14
83.85
78.49
78.96
86.95
87.11
87.02
87.41
88.91
91.72
100
Note: Lower left showed the identities of nucleotide sequences, and upper right showed the identities of deduced amino acid
sequences
1.3 Comparison of Lily SCA similarity and amino
acid sequence analysis
Amino acid sequences of mature protein corresponding
the cloned sequences were deduced based on
determination of slicing signal of intron, open reading
frame and signal peptide. The amino acid sequence
similarity was in the range from 87.91% to 98.90% for
higher than that of the nucleotide sequence by
pairwise comparison (Table 1). Furthermore, compared
to amino acid sequences of maize LTP, rice LTP,
Taiwan lily LfLTP and 'Nellie white' SCA (Figure 3),
the results of alignment and similarity analysis
showed that the sequence similarity with maize LTP
was in range from lowest 54.84% to highest 56.99%
and for rice LTP was from 50.55% to 52.75%, while
Lilium longiflorum
'Nellie white' SCA was similar
with Taiwan lily LfLTP, similarity reached the highest
98.90% and the lowest 92.31%, indicating that the
sequence was homologous.
Although SCA amino acid sequence had high
homology between the species, there were some
obvious differences in the 22
nd
site, in which Easter
lily, Taiwan lily and Asian lily were the valine (V), but
Oriental lily was the glutamate (E) or glutamine (Q).
While Easter lily, Taiwan lily and Asian lily were the
alanine (A) in the 64
th
site, but Oriental lily was the
asparagine (N). Likewise, Taiwan lily and Asian lily