Identification of a Tc1-like transposon integration site in the genome of the flounder (Platichthys flesus): A novel use of an inverse PCR method

被引:2
作者
Pocwierz-Kotus, Anita [1 ]
Burzynski, Artur [1 ]
Wenne, Roman [1 ]
机构
[1] Polish Acad Sci, Inst Oceanol, Dept Genet & Marine Biotechnol, PL-81712 Sopot, Poland
关键词
Tc1-like transposons; HMM; LINES; Non-LTR retrotransposons; TCL-LIKE TRANSPOSONS; FAMILY; FISH; ELEMENTS; VERTEBRATE; SEQUENCES; SOFTWARE; DATABASE; GENES;
D O I
10.1016/j.margen.2010.03.001
中图分类号
Q3 [遗传学];
学科分类号
071007 ; 090102 ;
摘要
The inverse PCR method has been developed and applied employed for the identification of the integration sites of the Tc1-like transposons in the genome of the flounder, Platichthys flesus. One Id-like insertion instance was recognized and characterized, demonstrating an efficiency of the method for determining of transposon integration sites. The similarity of the sequence flanking transposon (SFT) to reverse transcriptase sequences (RVT) was demonstrated. It is likely that the insertion took place within currently degenerated LINE (long interspersed nuclear elements) retrotransposon. (C) 2010 Elsevier B.V. All rights reserved.
引用
收藏
页码:45 / 50
页数:6
相关论文
共 42 条
[1]   Analysis of Transposon Interruptions Suggests Selection for L1 Elements on the X Chromosome [J].
Abrusan, Gyoergy ;
Giodano, Joti ;
Warburton, Peter E. .
PLOS GENETICS, 2008, 4 (08)
[2]   Gapped BLAST and PSI-BLAST: a new generation of protein database search programs [J].
Altschul, SF ;
Madden, TL ;
Schaffer, AA ;
Zhang, JH ;
Zhang, Z ;
Miller, W ;
Lipman, DJ .
NUCLEIC ACIDS RESEARCH, 1997, 25 (17) :3389-3402
[3]   GeneWise and genomewise [J].
Birney, E ;
Clamp, M ;
Durbin, R .
GENOME RESEARCH, 2004, 14 (05) :988-995
[4]   A new DNA sequence assembly program [J].
Bonfield, JK ;
Smith, KF ;
Staden, R .
NUCLEIC ACIDS RESEARCH, 1995, 23 (24) :4992-4999
[5]   Characterization of a Tc1-like transposon in the Antarctic ice-fish, Chionodraco hamatus [J].
Capriglione, T ;
Odierna, G ;
Caputo, V ;
Canapa, A ;
Olmo, E .
GENE, 2002, 295 (02) :193-198
[6]  
Dugan KA, 2002, J FORENSIC SCI, V47, P811
[7]   Profile hidden Markov models [J].
Eddy, SR .
BIOINFORMATICS, 1998, 14 (09) :755-763
[8]   Base-calling of automated sequencer traces using phred.: I.: Accuracy assessment [J].
Ewing, B ;
Hillier, L ;
Wendl, MC ;
Green, P .
GENOME RESEARCH, 1998, 8 (03) :175-185
[9]   The Pfam protein families database [J].
Finn, Robert D. ;
Tate, John ;
Mistry, Jaina ;
Coggill, Penny C. ;
Sammut, Stephen John ;
Hotz, Hans-Rudolf ;
Ceric, Goran ;
Forslund, Kristoffer ;
Eddy, Sean R. ;
Sonnhammer, Erik L. L. ;
Bateman, Alex .
NUCLEIC ACIDS RESEARCH, 2008, 36 :D281-D288
[10]   Evolutionary history of mammalian transposons determined by genome-wide defragmentation [J].
Giordano, Joti ;
Ge, Yongchao ;
Gelfand, Yevgeniy ;
Abrusan, Gyoergy ;
Benson, Gary ;
Warburton, Peter E. .
PLOS COMPUTATIONAL BIOLOGY, 2007, 3 (07) :1321-1334