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Complete sequencing and comparative analyses of the pepper (Capsicum annuum L.) plastome revealed high frequency of tandem repeats and large insertion/deletions on pepper plastome
被引:59
|作者:
Jo, Yeong Deuk
[1
,2
]
Park, Jongsun
[3
]
Kim, Jungeun
[4
,5
]
Song, Wonho
[3
]
Hur, Cheol-Goo
[4
,5
]
Lee, Yong-Hwan
[3
]
Kang, Byoung-Cheorl
[1
,2
]
机构:
[1] Seoul Natl Univ, Dept Plant Sci, Plant Genom & Breeding Inst, Seoul 151921, South Korea
[2] Seoul Natl Univ, Res Inst Agr & Life Sci, Seoul 151921, South Korea
[3] Seoul Natl Univ, Dept Agr Biotechnol, Seoul 151921, South Korea
[4] Korea Res Inst Biosci & Biotechnol, Plant Syst Engn Res Ctr, Taejon 305806, South Korea
[5] Univ Sci & Technol, Taejon 305333, South Korea
关键词:
Pepper;
Solanaceae;
Chloroplast;
COMPLETE CHLOROPLAST GENOME;
COMPLETE NUCLEOTIDE-SEQUENCE;
PHYLOGENETIC-RELATIONSHIPS;
DNA-SEQUENCE;
LAND PLANTS;
MITOCHONDRIAL GENOME;
TRACHELIUM-CAERULEUM;
STRUCTURAL FEATURES;
MULTIPLE INVERSIONS;
NICOTIANA-TABACUM;
D O I:
10.1007/s00299-010-0929-2
中图分类号:
Q94 [植物学];
学科分类号:
071001 ;
摘要:
Plants in the family Solanaceae are used as model systems in comparative and evolutionary genomics. The complete chloroplast genomes of seven solanaceous species have been sequenced, including tobacco, potato and tomato, but not peppers. We analyzed the complete chloroplast genome sequence of the hot pepper, Capsicum annuum. The pepper chloroplast genome was 156,781 bp in length, including a pair of inverted repeats (IR) of 25,783 bp. The content and the order of 133 genes in the pepper chloroplast genome were identical to those of other solanaceous plastomes. To characterize pepper plastome sequence, we performed comparative analysis using complete plastome sequences of pepper and seven solanaceous plastomes. Frequency and contents of large indels and tandem repeat sequences and distribution pattern of genome-wide sequence variations were investigated. In addition, a phylogenetic analysis using concatenated alignments of coding sequences was performed to determine evolutionary position of pepper in Solanaceae. Our results revealed two distinct features of pepper plastome compared to other solanaceous plastomes. Firstly, large indels, including insertions on accD and rpl20 gene sequences, were predominantly detected in the pepper plastome compared to other solanaceous plastomes. Secondly, tandem repeat sequences were particularly frequent in the pepper plastome. Taken together, our study represents unique features of evolution of pepper plastome among solanaceous plastomes.
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页码:217 / 229
页数:13
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