First reported chloroplast genome sequence of Punica granatum (cultivar Helow) from Jabal Al-Akhdar, Oman: phylogenetic comparative assortment with Lagerstroemia

Genetica
Abdul L KhanAhmed Al-Rawahi

Abstract

Pomegranate (Punica granatum L.) is one of the oldest known edible fruits. It has grown in popularity and is a profitable fruit crop due to its attractive features including a bright red appearance and its biological activities. Scientific exploration of the genetics and evolution of these beneficial traits has been hampered by limited genomic information. In this study, we sequenced the complete chloroplast (cp) genome of the native P. granatum (cultivar Helow) cultivated in the mountains of Jabal Al-Akhdar, Oman. The results revealed a P. granatum cp genome length of 158,630 bp, characterized by a relatively conserved structure containing 2 inverted repeat regions of 25,466 bp, an 18,686 bp small single copy regions, and an 89,015 bp large single copy region. The 86 protein-coding genes included 37 transfer RNA genes and 8 ribosomal RNA genes. Comparison of the P. granatum whole cp genome with seven Lagerstroemia species revealed an overall high degree of sequence similarity with divergence among intergenic spacers. The location, distribution, and divergence of repeat sequences and shared genes of the Punica and Lagerstroemia species were highly similar. Analyses of nucleotide substitution, insertion/deletions, and highly var...Continue Reading

References

Dec 1, 1987·Proceedings of the National Academy of Sciences of the United States of America·K H WolfeP M Sharp
Aug 15, 1995·Proceedings of the National Academy of Sciences of the United States of America·W PowellJ A Rafalski
Jul 19, 1994·Proceedings of the National Academy of Sciences of the United States of America·M T CleggB R Morton
May 15, 1998·Molecular Biology and Evolution·O Rose, D Falush
Dec 24, 1998·Nucleic Acids Research·G Benson
Feb 17, 2001·Trends in Ecology & Evolution·J ProvanP M. Hollingsworth
Nov 20, 2001·Nucleic Acids Research·S KurtzR Giegerich
Jan 31, 2002·Current Biology : CB·T Cavalier-Smith
Aug 13, 2003·Bioinformatics·Fredrik Ronquist, John P Huelsenbeck
Jun 8, 2004·Bioinformatics·Stacia K WymanJeffrey L Boore
Jun 25, 2004·Nucleic Acids Research·Kelly A FrazerInna Dubchak
Oct 27, 2004·DNA Research : an International Journal for Rapid Publication of Reports on Genes and Genomes·Ki-Joong Kim, Hae-Lim Lee
Jun 28, 2005·Nucleic Acids Research·Peter SchattnerTodd M Lowe
Oct 11, 2005·The Plant Journal : for Cell and Molecular Biology·Vasumathi KodeAnil Day
Jan 1, 1979·Proceedings of the National Academy of Sciences of the United States of America·R Kolodner, K K Tewari
Dec 13, 2006·Journal of Ethnopharmacology·Ephraim P Lansky, Robert A Newman
May 31, 2007·TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik·Christopher SaskiJihong Liu Clarke
Apr 18, 2008·Briefings in Bioinformatics·Sudhir KumarKoichiro Tamura
Sep 2, 2008·Science in China. Series C, Life Sciences·Junwang XuZhen Zhu
Nov 22, 2008·Food and Chemical Toxicology : an International Journal Published for the British Industrial Biological Research Association·Ismail CelikIsmail Isik
Dec 17, 2009·DNA Research : an International Journal for Rapid Publication of Reports on Genes and Genomes·S TangphatsornruangS Tragoonrung
May 31, 2011·Nature Biotechnology·Eman K Al-DousJoel A Malek
Jul 29, 2011·Genome Génome / Conseil National De Recherches Canada·Dai-Yong KuangLu Lu
Jan 1, 2011·Biological Research·Sezai ErcisliAhmet Esitken
Aug 1, 2012·Nature Methods·Diego DarribaDavid Posada
Jan 19, 2013·Molecular Biology and Evolution·Kazutaka Katoh, Daron M Standley
Jun 26, 2013·Molecular Biotechnology·Zahra HajiahmadiBadraldin Ebrahim Sayed-Tabatabaei

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Methods Mentioned

BETA
PCR
Tandem Repeats Finder

Software Mentioned

intemedia
Genomics Workbench
Clustal X
PAUP
Tandem Repeats Finder
MAFFT
MEGA7
mVISTA
CLC genomic workbench
Helow

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