title: Complete Sequence and Analysis of Coconut Palm (Cocos nucifera) Mitochondrial Genome.
abstract: Coconut (Cocos nucifera L.), a member of the palm family (Arecaceae), is one of the most economically important crops in tropics, serving as an important source of food, drink, fuel, medicine, and construction material. Here we report an assembly of the coconut (C. nucifera, Oman local Tall cultivar) mitochondrial (mt) genome based on next-generation sequencing data. This genome, 678,653bp in length and 45.5% in GC content, encodes 72 proteins, 9 pseudogenes, 23 tRNAs, and 3 ribosomal RNAs. Within the assembly, we find that the chloroplast (cp) derived regions account for 5.07% of the total assembly length, including 13 proteins, 2 pseudogenes, and 11 tRNAs. The mt genome has a relatively large fraction of repeat content (17.26%), including both forward (tandem) and inverted (palindromic) repeats. Sequence variation analysis shows that the Ti/Tv ratio of the mt genome is lower as compared to that of the nuclear genome and neutral expectation. By combining public RNA-Seq data for coconut, we identify 734 RNA editing sites supported by at least two datasets. In summary, our data provides the second complete mt genome sequence in the family Arecaceae, essential for further investigations on mitochondrial biology of seed plants.
authors.affiliation: Joint Center for Genomics Research (JCGR), King Abdulaziz City for Science and Technology and Chinese Academy of Sciences, Riyadh, Saudi Arabia.|National Center for Genomics Research (NCGR), King Abdulaziz City for Science and Technology, Riyadh, Saudi Arabia.
authors.forename: Hasan Awad
authors.initials: HA
authors.lastname: Aljohi
authors.affiliation: Joint Center for Genomics Research (JCGR), King Abdulaziz City for Science and Technology and Chinese Academy of Sciences, Riyadh, Saudi Arabia.|CAS Key Laboratory of Genome Sciences and Information, Beijing Institute of Genomics, Chinese Academy of Sciences, Beijing, China.
authors.forename: Wanfei
authors.identifier: http://orcid.org/0000-0002-6637-6807
authors.initials: W
authors.lastname: Liu
authors.affiliation: Joint Center for Genomics Research (JCGR), King Abdulaziz City for Science and Technology and Chinese Academy of Sciences, Riyadh, Saudi Arabia.|CAS Key Laboratory of Genome Sciences and Information, Beijing Institute of Genomics, Chinese Academy of Sciences, Beijing, China.
authors.forename: Qiang
authors.initials: Q
authors.lastname: Lin
authors.affiliation: CAS Key Laboratory of Genome Sciences and Information, Beijing Institute of Genomics, Chinese Academy of Sciences, Beijing, China.
authors.forename: Yuhui
authors.initials: Y
authors.lastname: Zhao
authors.affiliation: CAS Key Laboratory of Genome Sciences and Information, Beijing Institute of Genomics, Chinese Academy of Sciences, Beijing, China.
authors.forename: Jingyao
authors.initials: J
authors.lastname: Zeng
authors.affiliation: Joint Center for Genomics Research (JCGR), King Abdulaziz City for Science and Technology and Chinese Academy of Sciences, Riyadh, Saudi Arabia.|National Center for Genomics Research (NCGR), King Abdulaziz City for Science and Technology, Riyadh, Saudi Arabia.
authors.forename: Ali
authors.initials: A
authors.lastname: Alamer
authors.affiliation: Joint Center for Genomics Research (JCGR), King Abdulaziz City for Science and Technology and Chinese Academy of Sciences, Riyadh, Saudi Arabia.|National Center for Genomics Research (NCGR), King Abdulaziz City for Science and Technology, Riyadh, Saudi Arabia.
authors.forename: Ibrahim O
authors.initials: IO
authors.lastname: Alanazi
authors.affiliation: National Center for Genomics Research (NCGR), King Abdulaziz City for Science and Technology, Riyadh, Saudi Arabia.
authors.forename: Abdullah O
authors.initials: AO
authors.lastname: Alawad
authors.affiliation: Department of Crop Sciences, Sultan Qaboos University, AlKhoud, Oman.
authors.forename: Abdullah M
authors.initials: AM
authors.lastname: Al-Sadi
authors.affiliation: Joint Center for Genomics Research (JCGR), King Abdulaziz City for Science and Technology and Chinese Academy of Sciences, Riyadh, Saudi Arabia.|CAS Key Laboratory of Genome Sciences and Information, Beijing Institute of Genomics, Chinese Academy of Sciences, Beijing, China.
authors.forename: Songnian
authors.initials: S
authors.lastname: Hu
authors.affiliation: Joint Center for Genomics Research (JCGR), King Abdulaziz City for Science and Technology and Chinese Academy of Sciences, Riyadh, Saudi Arabia.|CAS Key Laboratory of Genome Sciences and Information, Beijing Institute of Genomics, Chinese Academy of Sciences, Beijing, China.
authors.forename: Jun
authors.initials: J
authors.lastname: Yu
mesh_terms: D003059:Cocos / Q000235:genetics*; D018744:DNA, Plant / Q000235:genetics; D054629:Genome, Mitochondrial; D018745:Genome, Plant; D010802:Phylogeny; D010940:Plant Proteins / Q000235:genetics; D011544:Pseudogenes; D018749:RNA, Plant / Q000235:genetics; D017422:Sequence Analysis, DNA; D059467:Transcriptome
chemical_list: D018744:DNA, Plant; D010940:Plant Proteins; D018749:RNA, Plant