{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,6,14]],"date-time":"2026-06-14T03:02:13Z","timestamp":1781406133332,"version":"3.54.1"},"reference-count":47,"publisher":"Hindawi Limited","license":[{"start":{"date-parts":[[2014,11,17]],"date-time":"2014-11-17T00:00:00Z","timestamp":1416182400000},"content-version":"unspecified","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by\/3.0\/"}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":["Advances in Bioinformatics"],"published-print":{"date-parts":[[2014,11,17]]},"abstract":"<jats:p>Availability of complete plastid genomes of ten solanaceous species, <jats:italic>Atropa belladonna<\/jats:italic>, <jats:italic>Capsicum annuum<\/jats:italic>, <jats:italic>Datura stramonium<\/jats:italic>, <jats:italic>Nicotiana sylvestris<\/jats:italic>, <jats:italic>Nicotiana tabacum<\/jats:italic>, <jats:italic>Nicotiana tomentosiformis<\/jats:italic>, <jats:italic>Nicotiana undulata<\/jats:italic>, <jats:italic>Solanum bulbocastanum<\/jats:italic>, <jats:italic>Solanum lycopersicum<\/jats:italic>, and <jats:italic>Solanum tuberosum<\/jats:italic> provided us with an opportunity to conduct their <jats:italic>in silico<\/jats:italic> comparative analysis in depth. The size of complete chloroplast genomes and LSC and SSC regions of three species of <jats:italic>Solanum<\/jats:italic> is comparatively smaller than that of any other species studied till date (exception: SSC region of <jats:italic>A. belladonna<\/jats:italic>). AT content of coding regions was found to be less than noncoding regions. A duplicate copy of trnH gene in <jats:italic>C. annuum<\/jats:italic> and two alternative tRNA genes for proline in <jats:italic>D. stramonium<\/jats:italic> were observed for the first time in this analysis. Further, homology search revealed the presence of rps19 pseudogene and infA genes in <jats:italic>A. belladonna<\/jats:italic> and <jats:italic>D. stramonium<\/jats:italic>, a region identical to rps19 pseudogene in <jats:italic>C. annum<\/jats: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 <jats:italic>C. annuum<\/jats:italic>. Phylogenetic analysis using concatenated protein coding sequences gave two clades, one for <jats:italic>Nicotiana<\/jats:italic> species and another for <jats:italic>Solanum<\/jats:italic>, <jats:italic>Capsicum<\/jats:italic>, <jats:italic>Atropa<\/jats:italic>, and <jats:italic>Datura<\/jats:italic>.<\/jats:p>","DOI":"10.1155\/2014\/424873","type":"journal-article","created":{"date-parts":[[2014,11,17]],"date-time":"2014-11-17T21:02:58Z","timestamp":1416258178000},"page":"1-13","source":"Crossref","is-referenced-by-count":4,"title":["Comparative Genomics of Ten Solanaceous Plastomes"],"prefix":"10.1155","volume":"2014","author":[{"given":"Harpreet","family":"Kaur","sequence":"first","affiliation":[{"name":"Department of Botanical and Environmental Sciences, Guru Nanak Dev University, Amritsar 143005, India"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Bhupinder Pal","family":"Singh","sequence":"additional","affiliation":[{"name":"Department of Botanical and Environmental Sciences, Guru Nanak Dev University, Amritsar 143005, India"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Harpreet","family":"Singh","sequence":"additional","affiliation":[{"name":"Department of Bioinformatics, Hans Raj Mahila Maha Vidyalaya, Jalandhar 144008, India"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Avinash Kaur","family":"Nagpal","sequence":"additional","affiliation":[{"name":"Department of Botanical and Environmental Sciences, Guru Nanak Dev University, Amritsar 143005, India"}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"98","reference":[{"key":"1","doi-asserted-by":"publisher","DOI":"10.1186\/1471-2229-6-21"},{"key":"2","doi-asserted-by":"publisher","DOI":"10.1007\/s10722-010-9626-9"},{"key":"3","doi-asserted-by":"publisher","DOI":"10.1146\/annurev.ge.19.120185.001545"},{"key":"4","doi-asserted-by":"publisher","DOI":"10.2307\/2445483"},{"key":"5","doi-asserted-by":"publisher","DOI":"10.1002\/bies.10405"},{"key":"6","first-page":"45","volume-title":"Chloroplast genomes of plants","year":"2005"},{"key":"7","doi-asserted-by":"publisher","DOI":"10.1007\/s00239-008-9086-4"},{"key":"8","doi-asserted-by":"publisher","DOI":"10.1104\/pp.118.1.9"},{"key":"9","doi-asserted-by":"publisher","DOI":"10.1016\/S0168-9525(99)01766-7"},{"key":"10","doi-asserted-by":"publisher","DOI":"10.1023\/A:1013892009589"},{"key":"11","doi-asserted-by":"publisher","DOI":"10.1007\/s10059-009-0047-6"},{"issue":"24","key":"12","first-page":"3494","volume":"9","year":"2010","journal-title":"African Journal of Biotechnology"},{"key":"13","doi-asserted-by":"publisher","DOI":"10.1093\/nar\/19.5.983"},{"key":"14","doi-asserted-by":"publisher","DOI":"10.1007\/BF00015612"},{"key":"15","doi-asserted-by":"publisher","DOI":"10.1007\/s002940050225"},{"key":"16","doi-asserted-by":"publisher","DOI":"10.1186\/1471-2148-9-130"},{"key":"17","doi-asserted-by":"publisher","DOI":"10.1093\/dnares\/7.6.323"},{"key":"18","doi-asserted-by":"publisher","DOI":"10.1093\/aob\/mcm010"},{"issue":"3","key":"19","doi-asserted-by":"crossref","first-page":"769","DOI":"10.1073\/pnas.84.3.769","volume":"84","year":"1987","journal-title":"Proceedings of the National Academy of Sciences of the United States of America"},{"key":"20","doi-asserted-by":"publisher","DOI":"10.1093\/nar\/gkn081"},{"key":"21","doi-asserted-by":"publisher","DOI":"10.1073\/pnas.89.16.7722"},{"key":"22","doi-asserted-by":"publisher","DOI":"10.3732\/ajb.90.1.93"},{"key":"23","doi-asserted-by":"publisher","DOI":"10.1186\/1756-0500-1-61"},{"key":"24","doi-asserted-by":"publisher","DOI":"10.1007\/s00239-009-9275-9"},{"key":"25","doi-asserted-by":"publisher","DOI":"10.1007\/s00299-006-0196-4"},{"key":"26","doi-asserted-by":"publisher","DOI":"10.1007\/s00122-006-0254-x"},{"key":"27","doi-asserted-by":"publisher","DOI":"10.1007\/s00239-005-0254-5"},{"key":"28","doi-asserted-by":"publisher","DOI":"10.1007\/s00438-005-0092-6"},{"key":"29","doi-asserted-by":"publisher","DOI":"10.1007\/s00299-010-0929-2"},{"key":"30","doi-asserted-by":"publisher","DOI":"10.1093\/oxfordjournals.molbev.a004222"},{"key":"31","doi-asserted-by":"publisher","DOI":"10.1093\/nar\/25.18.3681"},{"key":"32","doi-asserted-by":"publisher","DOI":"10.1073\/pnas.1114297109"},{"key":"33","first-page":"107","volume-title":"The complete nucleotide sequence genome of potato (Solanum tuberosum cv. 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