Transposable element insertions in ca. 5.7 Mb of orthologous genomic sequences from the coelacanth species <i>Latimeria chalumnae</i> and <i>L. menadoensis</i>.
Magali Naville
Domitille Chalopin
Jean-Nicolas Volff
10.1371/journal.pone.0114382.t001
https://plos.figshare.com/articles/dataset/_Transposable_element_insertions_in_ca_5_7_Mb_of_orthologous_genomic_sequences_from_the_coelacanth_species_Latimeria_chalumnae_and_L_menadoensis_/1258026
<p>TE = Transposable Element; LINE = Long Interspersed Nuclear Element; SINE = Short Interspersed Nuclear Element; LTR = Long Terminal Repeat; CR1 = Chicken Repeat 1; L1 = LINE 1; L2 = LINE 2; ERV = Endogenous Retrovirus; MITE = Miniature Inverted-repeat Transposable Element.</p><p>*The ERV insertion observed in <i>L. menadoensis</i> does not strictly correspond to an insertion polymorphism, the solo LTR observed at the orthologous site in <i>L. chalumnae</i> probably being the result of a recombination between the two LTRs framing the element (see main text).</p><p>**A composite insertion is observed in <i>L. menadoensis</i>, constituted by a Coeg-SINE flanked by two LF-SINEs in direct orientation. Only a “solo” LF-SINE is observed in <i>L. chalumnae</i>, suggesting deletion through homologous recombination between both LF-SINEs.</p><p>These “insertions” mostly comprise insertions <i>sensu stricto</i> but also a few deletions that occurred at the orthologous site in the other species.</p><p>Transposable element insertions in ca. 5.7 Mb of orthologous genomic sequences from the coelacanth species <i>Latimeria chalumnae</i> and <i>L. menadoensis</i>.</p>
2014-12-03 02:47:10
Interspecies Insertion Polymorphism Analysis
Latimeria species
Artificial Chromosome clones
transposable elements
Extant Coelacanths Coelacanths
cr
coelacanth genomes
chalumnae genome
orthologous genomic regions