Comparative Genomics of Ten Solanaceous Plastomes
Identifieur interne : 000B63 ( Main/Exploration ); précédent : 000B62; suivant : 000B64Comparative Genomics of Ten Solanaceous Plastomes
Auteurs : Harpreet Kaur [Inde] ; Bhupinder Pal Singh [Inde] ; Harpreet Singh [Inde] ; Avinash Kaur Nagpal [Inde]Source :
- Advances in Bioinformatics [ 1687-8027 ] ; 2014.
Abstract
Availability of complete plastid genomes of ten solanaceous species,
Url:
DOI: 10.1155/2014/424873
PubMed: 25477958
PubMed Central: 4248371
Affiliations:
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<series><title level="j">Advances in Bioinformatics</title>
<idno type="ISSN">1687-8027</idno>
<idno type="eISSN">1687-8035</idno>
<imprint><date when="2014">2014</date>
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<front><div type="abstract" xml:lang="en"><p>Availability of complete plastid genomes of ten solanaceous species, <italic>Atropa belladonna</italic>
, <italic>Capsicum annuum</italic>
, <italic>Datura stramonium</italic>
, <italic>Nicotiana sylvestris</italic>
, <italic>Nicotiana tabacum</italic>
, <italic>Nicotiana tomentosiformis</italic>
, <italic>Nicotiana undulata</italic>
, <italic>Solanum bulbocastanum</italic>
, <italic>Solanum lycopersicum</italic>
, and <italic>Solanum tuberosum</italic>
provided us with an opportunity to conduct their <italic>in silico</italic>
comparative analysis in depth. The size of complete chloroplast genomes and LSC and SSC regions of three species of <italic>Solanum</italic>
is comparatively smaller than that of any other species studied till date (exception: SSC region of <italic>A. belladonna</italic>
). AT content of coding regions was found to be less than noncoding regions. A duplicate copy of trnH gene in <italic>C. annuum</italic>
and two alternative tRNA genes for proline in <italic>D. stramonium</italic>
were observed for the first time in this analysis. Further, homology search revealed the presence of rps19 pseudogene and infA genes in <italic>A. belladonna</italic>
and <italic>D. stramonium</italic>
, a region identical to rps19 pseudogene in <italic>C. annum</italic>
and orthologues of sprA gene in another six species. Among the eighteen intron-containing genes, 3 genes have two introns and 15 genes have one intron. The longest insertion was found in accD gene in <italic>C. annuum</italic>
. Phylogenetic analysis using concatenated protein coding sequences gave two clades, one for <italic>Nicotiana</italic>
species and another for <italic>Solanum</italic>
, <italic>Capsicum</italic>
, <italic>Atropa</italic>
, and <italic>Datura</italic>
.</p>
</div>
</front>
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<affiliations><list><country><li>Inde</li>
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<tree><country name="Inde"><noRegion><name sortKey="Kaur, Harpreet" sort="Kaur, Harpreet" uniqKey="Kaur H" first="Harpreet" last="Kaur">Harpreet Kaur</name>
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