Literature DB >> 33490458

The complete chloroplast genome sequence of an economic plant Coffea canephora.

Dongyang Wu1,2, Changwei Bi1, Xuelin Wang1, Yiqing Xu1, Qiaolin Ye1, Ning Ye1.   

Abstract

Coffea canephora is a paramount economic plant with great economic value. The complete chloroplast (cp) genome is 154,751 bp in length, including a large single copy (LSC) region of 84,850 bp, a small single copy (SSC) region of 18,131 bp and a pair of inverted repeats (IRs) of 25,885bp. This cp genome contains 131 genes, comprising of 86 protein-coding genes, 37 tRNAs and 8 rRNAs. The majority of these genes were single copy genes, while 18 genes existed as double copies, including 6 protein-coding genes (ndhB, rpl2, rpl23, rps12, rps7 and ycf2), 8 tRNA genes (trnA-UGC, trnG-GCC, trnI-CAU, trnI-GAU, trnL-CAA, trnN-GUU, trnR-ACG and trnV-GAC) and 4 rRNA genes (rrn4.5, rrn5, rrn16 and rrn23). A neighbour-joining phylogenetic tree was reconstructed to indicate that Coffea canephora is evolutionarily close to Olea europaea within Asterids. The complete cp genome will provide intragenic information for molecular phylogeny and biological studies of the Rubiales.
© 2017 The Author(s). Published by Informa UK Limited, trading as Taylor & Francis Group.

Entities:  

Keywords:  Coffea canephora; chloroplast genome; phylogeny; rubiaceae

Year:  2017        PMID： 33490458      PMCID： PMC7800382          DOI： 10.1080/23802359.2017.1361353

Source DB:  PubMed          Journal:  Mitochondrial DNA B Resour        ISSN： 2380-2359            Impact factor:   0.658


  9 in total

Review 1.  Endosymbiotic gene transfer: organelle genomes forge eukaryotic chromosomes.

Authors:  Jeremy N Timmis; Michael A Ayliffe; Chun Y Huang; William Martin
Journal:  Nat Rev Genet       Date:  2004-02       Impact factor: 53.242

2.  Automatic annotation of organellar genomes with DOGMA.

Authors:  Stacia K Wyman; Robert K Jansen; Jeffrey L Boore
Journal:  Bioinformatics       Date:  2004-06-04       Impact factor: 6.937

3.  OrganellarGenomeDRAW (OGDRAW): a tool for the easy generation of high-quality custom graphical maps of plastid and mitochondrial genomes.

Authors:  Marc Lohse; Oliver Drechsel; Ralph Bock
Journal:  Curr Genet       Date:  2007-10-24       Impact factor: 3.886

4.  An efficient and rapid protocol for plant nuclear DNA preparation suitable for next generation sequencing methods.

Authors:  Gregory Carrier; Sylvain Santoni; Marguerite Rodier-Goud; Aurélie Canaguier; Alexandre de Kochko; Christine Dubreuil-Tranchant; Patrice This; Jean-Michel Boursiquot; Loïc Le Cunff
Journal:  Am J Bot       Date:  2010-12-23       Impact factor: 3.844

5.  The coffee genome provides insight into the convergent evolution of caffeine biosynthesis.

Authors:  France Denoeud; Lorenzo Carretero-Paulet; Alexis Dereeper; Gaëtan Droc; Romain Guyot; Marco Pietrella; Chunfang Zheng; Adriana Alberti; François Anthony; Giuseppe Aprea; Jean-Marc Aury; Pascal Bento; Maria Bernard; Stéphanie Bocs; Claudine Campa; Alberto Cenci; Marie-Christine Combes; Dominique Crouzillat; Corinne Da Silva; Loretta Daddiego; Fabien De Bellis; Stéphane Dussert; Olivier Garsmeur; Thomas Gayraud; Valentin Guignon; Katharina Jahn; Véronique Jamilloux; Thierry Joët; Karine Labadie; Tianying Lan; Julie Leclercq; Maud Lepelley; Thierry Leroy; Lei-Ting Li; Pablo Librado; Loredana Lopez; Adriana Muñoz; Benjamin Noel; Alberto Pallavicini; Gaetano Perrotta; Valérie Poncet; David Pot; Michel Rigoreau; Mathieu Rouard; Julio Rozas; Christine Tranchant-Dubreuil; Robert VanBuren; Qiong Zhang; Alan C Andrade; Xavier Argout; Benoît Bertrand; Alexandre de Kochko; Giorgio Graziosi; Robert J Henry; Ray Ming; Chifumi Nagai; Steve Rounsley; David Sankoff; Giovanni Giuliano; Victor A Albert; Patrick Wincker; Philippe Lashermes
Journal:  Science       Date:  2014-09-04       Impact factor: 47.728

6.  BLAST+: architecture and applications.

Authors:  Christiam Camacho; George Coulouris; Vahram Avagyan; Ning Ma; Jason Papadopoulos; Kevin Bealer; Thomas L Madden
Journal:  BMC Bioinformatics       Date:  2009-12-15       Impact factor: 3.169

7.  Complete chloroplast genome sequence of a major economic species, Ziziphus jujuba (Rhamnaceae).

Authors:  Qiuyue Ma; Shuxian Li; Changwei Bi; Zhaodong Hao; Congrui Sun; Ning Ye
Journal:  Curr Genet       Date:  2016-05-20       Impact factor: 3.886

8.  Homostachydrine (pipecolic acid betaine) as authentication marker of roasted blends of Coffea arabica and Coffea canephora (Robusta) beans.

Authors:  Luigi Servillo; Alfonso Giovane; Rosario Casale; Domenico Cautela; Nunzia D'Onofrio; Maria Luisa Balestrieri; Domenico Castaldo
Journal:  Food Chem       Date:  2016-03-03       Impact factor: 7.514

9.  The evolution of the plastid chromosome in land plants: gene content, gene order, gene function.

Authors:  Susann Wicke; Gerald M Schneeweiss; Claude W dePamphilis; Kai F Müller; Dietmar Quandt
Journal:  Plant Mol Biol       Date:  2011-03-22       Impact factor: 4.076
  9 in total

北京卡尤迪生物科技股份有限公司 © 2022-2023.